@faubulous/mentor-rdf 0.2.49 → 0.2.50

package/out/rdf/reasoners/reasoner.js

@@ -1,106 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.ReasonerBase = void 0;
-const tslib_1 = require("tslib");
-const n3 = tslib_1.__importStar(require("n3"));
-const ontologies_1 = require("../../ontologies");
-/**
- * A base class for reasoners that expand graphs with inferred triples.
- */
-class ReasonerBase {
-    constructor() {
-        this.store = new n3.Store();
-        this.errors = [];
-    }
-    getInferenceGraphUri(uri) {
-        const u = new URL(typeof uri == "string" ? uri : uri.value);
-        u.protocol = 'mentor:';
-        // This reasoner is specifically designed to work with the Mentor platform.
-        return u.toString();
-    }
-    isInferenceGraphUri(uri) {
-        const u = new URL(typeof uri == "string" ? uri : uri.value);
-        return u.protocol === 'mentor:';
-    }
-    getGraphNode(graph) {
-        if (typeof graph === "string") {
-            return new n3.NamedNode(graph);
-        }
-        else {
-            return graph;
-        }
-    }
-    isW3CNode(term) {
-        return term.value.startsWith("http://www.w3.org");
-    }
-    /**
-     * Get the URIs of ordered list members in the store.
-     * @param graphUris Optional graph URI or array of graph URIs to query.
-     * @param listUri URI of the list to get the items from.
-     * @returns An array of URIs of the items in the list.
-     */
-    getListItems(listUri) {
-        // To do: Fix #10
-        const list = listUri.includes(':') ? new n3.NamedNode(listUri) : new n3.BlankNode(listUri);
-        return this._getListItems(list);
-    }
-    _getListItems(subject) {
-        var _a;
-        if (!this.sourceGraph) {
-            return [];
-        }
-        let first = Array.from(this.match(this.sourceGraph, subject, ontologies_1.rdf.first, null));
-        if (!first.length) {
-            return [];
-        }
-        const rest = Array.from(this.match(this.sourceGraph, subject, ontologies_1.rdf.rest, null));
-        const firstItem = first[0].object;
-        const restList = (_a = rest[0]) === null || _a === void 0 ? void 0 : _a.object;
-        if (restList.value === ontologies_1.RDF.nil) {
-            return [firstItem];
-        }
-        else {
-            const restItems = this._getListItems(restList);
-            return [firstItem, ...restItems];
-        }
-    }
-    /**
-     * Query the store for triples matching the given pattern supporting multiple graphs.
-     * @param graphUris Optional graph URI or array of graph URIs to query.
-     * @param subject A subject URI or null to match any subject.
-     * @param predicate A predicate URI or null to match any predicate.
-     * @param object An object URI or null to match any object.
-     * @todo Refactor and merge with the same method in the Mentor RDF Store class.
-     */
-    *match(graph, subject, predicate, object) {
-        if (graph !== undefined) {
-            yield* this.store.match(subject, predicate, object, graph);
-        }
-        else {
-            yield* this.store.match(subject, predicate, object);
-        }
-    }
-    expand(store, sourceGraph, targetGraph) {
-        if (!targetGraph) {
-            targetGraph = this.getInferenceGraphUri(sourceGraph);
-        }
-        this.store = store;
-        if (this.store.getGraphs(null, null, null).filter(g => g.id == targetGraph).length > 0) {
-            // Ensure the target graph is empty so this function is idempotent and consistent.
-            store.deleteGraph(targetGraph);
-        }
-        this.sourceGraph = this.getGraphNode(sourceGraph);
-        this.targetGraph = this.getGraphNode(targetGraph);
-        this.beforeInference();
-        for (let quad of store.match(null, null, null, this.sourceGraph)) {
-            let q = quad;
-            this.applyInference(q);
-        }
-        this.afterInference();
-        return store;
-    }
-    beforeInference() { }
-    afterInference() { }
-}
-exports.ReasonerBase = ReasonerBase;
-//# sourceMappingURL=reasoner.js.map

package/out/rdf/reasoners/reasoner.js.map

@@ -1 +0,0 @@
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package/out/rdf/reasoners/shacl-reasoner.js

@@ -1,170 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.ShaclReasoner = void 0;
-const ontologies_1 = require("../../ontologies");
-const rdfs_reasoner_1 = require("./rdfs-reasoner");
-/**
- * A simple SKOS reasoner that expands the graph with inferred triples.
- */
-class ShaclReasoner extends rdfs_reasoner_1.RdfsReasoner {
-    constructor() {
-        super(...arguments);
-        this.classes = new Set();
-    }
-    isClass(id) {
-        return this.classes.has(id) || super.isClass(id);
-    }
-    applyInference(quad) {
-        super.applyInference(quad);
-        this.inferShapeAxioms(quad);
-    }
-    assertShape(subject, type) {
-        this.store.addQuad(subject, ontologies_1.rdf.type, ontologies_1.sh.Shape, this.targetGraph);
-        if (type) {
-            this.store.addQuad(subject, ontologies_1.rdf.type, type, this.targetGraph);
-        }
-        this.classes.add(subject.id);
-    }
-    assertValidator(subject) {
-        this.store.addQuad(subject, ontologies_1.rdf.type, ontologies_1.sh.Validator, this.targetGraph);
-        this.classes.add(subject.id);
-    }
-    assertParameterizable(subject) {
-        this.store.addQuad(subject, ontologies_1.rdf.type, ontologies_1.sh.Parameterizable, this.targetGraph);
-        this.classes.add(subject.id);
-    }
-    assertRule(subject) {
-        this.store.addQuad(subject, ontologies_1.rdf.type, ontologies_1.sh.Rule, this.targetGraph);
-        this.classes.add(subject.id);
-    }
-    isShapeType(subject) {
-        switch (subject.id) {
-            case ontologies_1.sh.Shape.id:
-            case ontologies_1.sh.NodeShape.id:
-            case ontologies_1.sh.PropertyShape.id:
-            case ontologies_1.sh.Parameter.id: {
-                return true;
-            }
-            default: {
-                return false;
-            }
-        }
-    }
-    isRuleType(subject) {
-        switch (subject.id) {
-            case ontologies_1.sh.Rule.id:
-            case ontologies_1.sh.JSRule.id:
-            case ontologies_1.sh.SPARQLRule.id:
-            case ontologies_1.sh.TripleRule.id: {
-                return true;
-            }
-            default: {
-                return false;
-            }
-        }
-    }
-    isValidatorType(subject) {
-        switch (subject.id) {
-            case ontologies_1.sh.Validator.id:
-            case ontologies_1.sh.JSValidator.id:
-            case ontologies_1.sh.SPARQLAskValidator.id:
-            case ontologies_1.sh.SPARQLSelectValidator.id: {
-                return true;
-            }
-            default: {
-                return false;
-            }
-        }
-    }
-    isParameterizableType(subject) {
-        switch (subject.id) {
-            case ontologies_1.sh.Parameter.id:
-            case ontologies_1.sh.ConstraintComponent.id:
-            case ontologies_1.sh.Function.id:
-            case ontologies_1.sh.JSFunction.id:
-            case ontologies_1.sh.SPARQLFunction.id:
-            case ontologies_1.sh.TargetType.id:
-            case ontologies_1.sh.JSTargetType.id:
-            case ontologies_1.sh.SPARQLTargetType.id: {
-                return true;
-            }
-            default: {
-                return false;
-            }
-        }
-    }
-    inferShapeAxioms(quad) {
-        let s = quad.subject;
-        let p = quad.predicate;
-        let o = quad.object.termType != "Literal" ? quad.object : undefined;
-        if (!o) {
-            return;
-        }
-        switch (p.id) {
-            case ontologies_1.rdf.type.id: {
-                if (o.equals(ontologies_1.sh.Shape) || o.equals(ontologies_1.sh.Parameterizable)) {
-                    // No need to infer the type, as it is already asserted.
-                    this.classes.add(s.id);
-                }
-                else if (this.isShapeType(o)) {
-                    this.assertShape(s, o);
-                }
-                else if (this.isParameterizableType(o)) {
-                    this.assertParameterizable(s);
-                }
-                else if (this.isValidatorType(o)) {
-                    this.assertValidator(s);
-                }
-                else if (this.isRuleType(o)) {
-                    this.assertRule(s);
-                }
-                return;
-            }
-            case ontologies_1.sh.targetClass.id: {
-                this.assertShape(s, ontologies_1.sh.NodeShape);
-                this.assertClass(o);
-                return;
-            }
-            case ontologies_1.sh.class.id: {
-                this.assertShape(s, ontologies_1.sh.PropertyShape);
-                this.assertClass(o);
-                return;
-            }
-            case ontologies_1.sh.path.id: {
-                this.assertShape(s, ontologies_1.sh.PropertyShape);
-                this.assertProperty(o);
-                return;
-            }
-            case ontologies_1.sh.property.id: {
-                this.assertShape(s, ontologies_1.sh.NodeShape);
-                this.assertShape(o, ontologies_1.sh.PropertyShape);
-                return;
-            }
-            case ontologies_1.sh.parameter.id: {
-                this.assertShape(o, ontologies_1.sh.Parameter);
-                this.assertParameterizable(s);
-                return;
-            }
-            case ontologies_1.sh.labelTemplate.id: {
-                this.assertParameterizable(s);
-                return;
-            }
-            case ontologies_1.sh.validator.id: {
-                this.assertValidator(o);
-                return;
-            }
-            case ontologies_1.sh.rule.id: {
-                this.assertRule(o);
-                return;
-            }
-            case ontologies_1.sh.subject.id:
-            case ontologies_1.sh.predicate.id:
-            case ontologies_1.sh.object.id: {
-                this.assertRule(s);
-                return;
-            }
-        }
-    }
-}
-exports.ShaclReasoner = ShaclReasoner;
-//# sourceMappingURL=shacl-reasoner.js.map

package/out/rdf/reasoners/shacl-reasoner.js.map

@@ -1 +0,0 @@
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package/out/rdf/reasoners/skos-reasoner.js

@@ -1,109 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.SkosReasoner = void 0;
-const ontologies_1 = require("../../ontologies");
-const reasoner_1 = require("./reasoner");
-/**
- * A simple SKOS reasoner that expands the graph with inferred triples.
- */
-class SkosReasoner extends reasoner_1.ReasonerBase {
-    constructor() {
-        super(...arguments);
-        this.concepts = new Set();
-        this.conceptSchemes = new Set();
-        this.collections = new Set();
-    }
-    applyInference(quad) {
-        this.inferConceptAxioms(quad);
-        this.inferCollectionAxioms(quad);
-    }
-    assertConcept(subject) {
-        this.store.addQuad(subject, ontologies_1.rdf.type, ontologies_1.skos.Concept, this.targetGraph);
-        this.concepts.add(subject.id);
-    }
-    assertConceptScheme(subject) {
-        this.store.addQuad(subject, ontologies_1.rdf.type, ontologies_1.skos.ConceptScheme, this.targetGraph);
-        this.conceptSchemes.add(subject.id);
-    }
-    isClass(id) {
-        return this.concepts.has(id) ||
-            this.conceptSchemes.has(id) ||
-            this.collections.has(id);
-    }
-    inferConceptAxioms(quad) {
-        let s = quad.subject;
-        let p = quad.predicate;
-        let o = quad.object.termType != "Literal" ? quad.object : undefined;
-        if (!o) {
-            return;
-        }
-        switch (p.id) {
-            case ontologies_1.rdf.type.id: {
-                if (o.equals(ontologies_1.skos.Concept)) {
-                    // No need to infer the type, as it is already asserted.
-                    this.concepts.add(s.id);
-                }
-                else if (o.equals(ontologies_1.skos.ConceptScheme)) {
-                    // No need to infer the type, as it is already asserted.
-                    this.conceptSchemes.add(s.id);
-                }
-                return;
-            }
-            case ontologies_1.skos.inScheme.id: {
-                this.assertConcept(s);
-                this.assertConceptScheme(o);
-                return;
-            }
-            case ontologies_1.skos.topConceptOf.id: {
-                this.assertConcept(s);
-                this.assertConceptScheme(o);
-                return;
-            }
-            case ontologies_1.skos.hasTopConcept.id: {
-                this.assertConcept(o);
-                this.assertConceptScheme(s);
-                return;
-            }
-        }
-    }
-    assertCollection(subject) {
-        this.store.addQuad(subject, ontologies_1.rdf.type, ontologies_1.skos.Collection, this.targetGraph);
-        this.collections.add(subject.id);
-    }
-    assertOrderedCollection(subject) {
-        this.store.addQuad(subject, ontologies_1.rdf.type, ontologies_1.skos.OrderedCollection, this.targetGraph);
-        // We do not make a distinction between collections and ordered collections here.
-        this.collections.add(subject.id);
-    }
-    inferCollectionAxioms(quad) {
-        let s = quad.subject;
-        let p = quad.predicate;
-        let o = quad.object.termType != "Literal" ? quad.object : undefined;
-        if (!o) {
-            return;
-        }
-        switch (p.id) {
-            case ontologies_1.rdf.type.id: {
-                if (o.equals(ontologies_1.skos.Collection)) {
-                    // No need to infer the type, as it is already asserted.
-                    this.collections.add(s.id);
-                }
-                else if (o.equals(ontologies_1.skos.OrderedCollection)) {
-                    // No need to infer the type, as it is already asserted.
-                    this.collections.add(s.id);
-                }
-                return;
-            }
-            case ontologies_1.skos.member.id: {
-                this.assertCollection(s);
-                return;
-            }
-            case ontologies_1.skos.memberList.id: {
-                this.assertOrderedCollection(s);
-                return;
-            }
-        }
-    }
-}
-exports.SkosReasoner = SkosReasoner;
-//# sourceMappingURL=skos-reasoner.js.map

package/out/rdf/reasoners/skos-reasoner.js.map

@@ -1 +0,0 @@
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package/out/rdf/resource-repository.js

@@ -1,136 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.ResourceRepository = void 0;
-const tslib_1 = require("tslib");
-const n3 = tslib_1.__importStar(require("n3"));
-const ontologies_1 = require("../ontologies");
-const uri_1 = require("./uri");
-/**
- * A repository for retrieving resources from graphs.
- */
-class ResourceRepository {
-    constructor(store) {
-        this.store = store;
-    }
-    /**
-     * Inidiates if a node should not be included in the result of a definition query.
-     * @param graphUris URIs of the graphs to search.
-     * @param subject The focus node.
-     * @param options Definition query options.
-     * @param optionDefaults Custom default values for the query options.
-     * @returns
-     */
-    skip(graphUris, subject, options, optionDefaults = { includeBlankNodes: false, includeReferenced: false }) {
-        const opts = Object.assign(Object.assign({}, optionDefaults), options);
-        if (!opts.includeBlankNodes && subject.termType != "NamedNode") {
-            // We are only interested in named nodes.
-            return true;
-        }
-        if (!opts.includeReferenced && !this.hasSubject(graphUris, subject)) {
-            // Skip the node if it is not explicitly defined in the graph as a subject.
-            return true;
-        }
-        if ((opts === null || opts === void 0 ? void 0 : opts.definedBy) !== undefined) {
-            const isDefined = this.isDefinedBy(graphUris, subject, opts.definedBy);
-            // Do not skip the node if it has a different namespace but is *explicitly* defined by the given URI.
-            if (opts.definedBy === null && isDefined || opts.definedBy !== null && !isDefined) {
-                return true;
-            }
-        }
-        else if ((opts === null || opts === void 0 ? void 0 : opts.notDefinedBy) !== undefined) {
-            for (const source of opts.notDefinedBy) {
-                if (this.isDefinedBy(graphUris, subject, source)) {
-                    return true;
-                }
-            }
-        }
-        return false;
-    }
-    /**
-     * Indicate if a given URI exists as the subject of a triple in the graph.
-     * @param graphUris URIs of the graphs to search.
-     * @param subjectUri URI of the subject to search for.
-     * @returns true if the URI is a subject, false otherwise.
-     */
-    hasSubject(graphUris, subjectUri) {
-        let s;
-        if (typeof subjectUri === "string") {
-            s = n3.DataFactory.namedNode(subjectUri);
-        }
-        else if (subjectUri.termType !== "Literal") {
-            s = subjectUri;
-        }
-        if (s) {
-            for (let _ of this.store.match(graphUris, s, null, null, false)) {
-                return true;
-            }
-        }
-        return false;
-    }
-    /**
-     * Indicate if a node is explicitly defined by the given URI using the `rdfs:isDefinedBy` property, or implicitly by sharing the same namespace.
-     * @param graphUris URIs of the graphs to search.
-     * @param node A named node to check if it is defined by the given URI.
-     * @param definedBy URI of the vocabulary that defines the resource (rdfs:isDefinedBy). Provide `null` to only return resources that have no `rdfs:isDefinedBy` property.
-     * @returns `true` if the node is defined by the given URI, `false` otherwise.
-     */
-    isDefinedBy(graphUris, node, definedBy) {
-        const s = node;
-        if (definedBy === null) {
-            // If there is no definedBy URI, we assume that the resource is not
-            // explicitly defined by any ontology.
-            for (let _ of this.store.match(graphUris, s, ontologies_1.rdfs.isDefinedBy, null)) {
-                return true;
-            }
-        }
-        else {
-            // We assume that a resource is defined by an ontology if it starts with the namespace of the ontology.
-            if (node.value.startsWith(definedBy)) {
-                return true;
-            }
-            // If the ontology is something like <http://purl.obolibrary.org/obo/bfo.owl> or <http://www.w3.org/ns/prov#>
-            // and the subject is <http://purl.obolibrary.org/obo/BFO_0000001> or <http://www.w3.org/ns/prov#Entity>
-            // then we assume that it is defined by the ontology. The OBO case shows that we need to remove the file
-            // name in oder to be able to compare the namespace URIs.
-            const ontologyNamespace = uri_1.Uri.getNormalizedUri(uri_1.Uri.getNamespaceUri(definedBy));
-            const subjectNamespace = uri_1.Uri.getNormalizedUri(uri_1.Uri.getNamespaceUri(node.value));
-            if (subjectNamespace === ontologyNamespace) {
-                return true;
-            }
-            const o = n3.DataFactory.namedNode(uri_1.Uri.getNormalizedUri(definedBy));
-            // The explicit annotation of the definition source has precedence over heuristic checks.
-            for (let q of this.store.match(graphUris, s, ontologies_1.rdfs.isDefinedBy, null)) {
-                if (uri_1.Uri.getNormalizedUri(q.object.value) === o.value) {
-                    return true;
-                }
-            }
-            // A blank node is defined in the namespace if it is the object of a triple that is defined by the URI.
-            if (s.termType === "BlankNode") {
-                for (let q of this.store.match(graphUris, null, null, s, false)) {
-                    return this.isDefinedBy(graphUris, q.subject, definedBy);
-                }
-            }
-        }
-        return false;
-    }
-    /**
-     * Indicate if a resource has a given type in the graph.
-     * @param graphUris URIs of the graphs to search.
-     * @param subjectUri URI or blank node id of the subject to match.
-     * @param typeUri URI of the type to match.
-     * @param options Optional query parameters.
-     * @returns `true` if the resource has the type, `false` otherwise.
-     */
-    hasType(graphUris, subjectUri, typeUri, options) {
-        const o = n3.DataFactory.namedNode(typeUri);
-        for (let _ of this.store.match(graphUris, n3.DataFactory.namedNode(subjectUri), ontologies_1.rdf.type, o, options === null || options === void 0 ? void 0 : options.includeInferred)) {
-            return true;
-        }
-        for (let _ of this.store.match(graphUris, n3.DataFactory.blankNode(subjectUri), ontologies_1.rdf.type, o, options === null || options === void 0 ? void 0 : options.includeInferred)) {
-            return true;
-        }
-        return false;
-    }
-}
-exports.ResourceRepository = ResourceRepository;
-//# sourceMappingURL=resource-repository.js.map

package/out/rdf/resource-repository.js.map

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