@apollo-annotation/jbrowse-plugin-apollo 1.0.1 → 1.1.1

package/dist/OntologyManager/index.d.ts

@@ -0,0 +1,734 @@
+import { LocalPathLocation, UriLocation } from '@jbrowse/core/util/types/mst';
+import { type Instance } from '@jbrowse/mobx-state-tree';
+import OntologyStore, { type OntologyStoreOptions } from './OntologyStore';
+export { isDeprecated } from './OntologyStore/indexeddb-schema';
+export declare const OntologyRecordType: import("@jbrowse/mobx-state-tree").IModelType<{
+    name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+    version: import("@jbrowse/mobx-state-tree").IType<string | undefined, string, string>;
+    source: import("@jbrowse/mobx-state-tree").ITypeUnion<import("@jbrowse/mobx-state-tree").ModelCreationType<{
+        locationType: "UriLocation";
+        uri: string;
+        baseUri: string | undefined;
+        internetAccountId: string | undefined;
+        internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").ModelCreationType<{
+            internetAccountType: string;
+            authInfo: any;
+        }> | undefined;
+    }> | import("@jbrowse/mobx-state-tree").ModelCreationType<{
+        locationType: "BlobLocation";
+        name: string;
+        blobId: string;
+    }> | import("@jbrowse/mobx-state-tree").ModelCreationType<{
+        locationType: "LocalPathLocation";
+        localPath: string;
+    }>, {
+        locationType: "UriLocation";
+        uri: string;
+        internetAccountId: string | undefined;
+        internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
+            internetAccountType: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+            authInfo: import("@jbrowse/mobx-state-tree").IType<any, any, any>;
+        }> | undefined;
+    } | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
+        locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
+        name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+    }> | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
+        locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
+        localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+    }>, import("@jbrowse/mobx-state-tree").ModelInstanceType<{
+        locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
+        name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+    }, {}> | import("@jbrowse/mobx-state-tree").ModelInstanceType<{
+        locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
+        localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+    }, {}> | ({
+        locationType: "UriLocation";
+        uri: string;
+    } & Partial<{
+        locationType: "UriLocation";
+        uri: string;
+        baseUri: string | undefined;
+        internetAccountId: string | undefined;
+        internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").ModelCreationType<{
+            internetAccountType: string;
+            authInfo: any;
+        }> | undefined;
+    }> & import("@jbrowse/mobx-state-tree").NonEmptyObject)>;
+    options: import("@jbrowse/mobx-state-tree").IType<OntologyStoreOptions, OntologyStoreOptions, OntologyStoreOptions>;
+    equivalentTypes: import("@jbrowse/mobx-state-tree").IMapType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").ISimpleType<string>>>;
+}, {
+    dataStore: undefined | OntologyStore;
+    startedEquivalentTypeRequests: Set<string>;
+} & {
+    /** does nothing, just used to access the model to force its lifecycle hooks to run */
+    ping(): void;
+    initDataStore(): void;
+    afterCreate(): void;
+    setEquivalentTypes(type: string, equivalentTypes: string[]): void;
+} & {
+    loadEquivalentTypes: (type: string) => Promise<void>;
+} & {
+    afterCreate(): void;
+    setEquivalentTypes(type: string, equivalentTypes: string[]): void;
+} & {
+    isTypeOf(queryType: string, typeOf: string): boolean;
+}, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>;
+export declare const OntologyManagerType: import("@jbrowse/mobx-state-tree").IModelType<{
+    ontologies: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IModelType<{
+        name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        version: import("@jbrowse/mobx-state-tree").IType<string | undefined, string, string>;
+        source: import("@jbrowse/mobx-state-tree").ITypeUnion<import("@jbrowse/mobx-state-tree").ModelCreationType<{
+            locationType: "UriLocation";
+            uri: string;
+            baseUri: string | undefined;
+            internetAccountId: string | undefined;
+            internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").ModelCreationType<{
+                internetAccountType: string;
+                authInfo: any;
+            }> | undefined;
+        }> | import("@jbrowse/mobx-state-tree").ModelCreationType<{
+            locationType: "BlobLocation";
+            name: string;
+            blobId: string;
+        }> | import("@jbrowse/mobx-state-tree").ModelCreationType<{
+            locationType: "LocalPathLocation";
+            localPath: string;
+        }>, {
+            locationType: "UriLocation";
+            uri: string;
+            internetAccountId: string | undefined;
+            internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
+                internetAccountType: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+                authInfo: import("@jbrowse/mobx-state-tree").IType<any, any, any>;
+            }> | undefined;
+        } | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
+            locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
+            name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+            blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        }> | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
+            locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
+            localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        }>, import("@jbrowse/mobx-state-tree").ModelInstanceType<{
+            locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
+            name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+            blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        }, {}> | import("@jbrowse/mobx-state-tree").ModelInstanceType<{
+            locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
+            localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        }, {}> | ({
+            locationType: "UriLocation";
+            uri: string;
+        } & Partial<{
+            locationType: "UriLocation";
+            uri: string;
+            baseUri: string | undefined;
+            internetAccountId: string | undefined;
+            internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").ModelCreationType<{
+                internetAccountType: string;
+                authInfo: any;
+            }> | undefined;
+        }> & import("@jbrowse/mobx-state-tree").NonEmptyObject)>;
+        options: import("@jbrowse/mobx-state-tree").IType<OntologyStoreOptions, OntologyStoreOptions, OntologyStoreOptions>;
+        equivalentTypes: import("@jbrowse/mobx-state-tree").IMapType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").ISimpleType<string>>>;
+    }, {
+        dataStore: undefined | OntologyStore;
+        startedEquivalentTypeRequests: Set<string>;
+    } & {
+        /** does nothing, just used to access the model to force its lifecycle hooks to run */
+        ping(): void;
+        initDataStore(): void;
+        afterCreate(): void;
+        setEquivalentTypes(type: string, equivalentTypes: string[]): void;
+    } & {
+        loadEquivalentTypes: (type: string) => Promise<void>;
+    } & {
+        afterCreate(): void;
+        setEquivalentTypes(type: string, equivalentTypes: string[]): void;
+    } & {
+        isTypeOf(queryType: string, typeOf: string): boolean;
+    }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
+    prefixes: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IMapType<import("@jbrowse/mobx-state-tree").ISimpleType<string>>, [undefined]>;
+}, {
+    readonly featureTypeOntologyName: string;
+} & {
+    /**
+     * gets the OntologyRecord for the ontology we should be
+     * using for feature types (e.g. SO or maybe biotypes)
+     **/
+    readonly featureTypeOntology: ({
+        name: string;
+        version: string;
+        source: ({
+            locationType: "BlobLocation";
+            name: string;
+            blobId: string;
+        } & import("@jbrowse/mobx-state-tree").NonEmptyObject & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").ITypeUnion<import("@jbrowse/mobx-state-tree").ModelCreationType<{
+            locationType: "UriLocation";
+            uri: string;
+            baseUri: string | undefined;
+            internetAccountId: string | undefined;
+            internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").ModelCreationType<{
+                internetAccountType: string;
+                authInfo: any;
+            }> | undefined;
+        }> | import("@jbrowse/mobx-state-tree").ModelCreationType<{
+            locationType: "BlobLocation";
+            name: string;
+            blobId: string;
+        }> | import("@jbrowse/mobx-state-tree").ModelCreationType<{
+            locationType: "LocalPathLocation";
+            localPath: string;
+        }>, {
+            locationType: "UriLocation";
+            uri: string;
+            internetAccountId: string | undefined;
+            internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
+                internetAccountType: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+                authInfo: import("@jbrowse/mobx-state-tree").IType<any, any, any>;
+            }> | undefined;
+        } | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
+            locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
+            name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+            blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        }> | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
+            locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
+            localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        }>, import("@jbrowse/mobx-state-tree").ModelInstanceType<{
+            locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
+            name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+            blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        }, {}> | import("@jbrowse/mobx-state-tree").ModelInstanceType<{
+            locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
+            localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        }, {}> | ({
+            locationType: "UriLocation";
+            uri: string;
+        } & Partial<{
+            locationType: "UriLocation";
+            uri: string;
+            baseUri: string | undefined;
+            internetAccountId: string | undefined;
+            internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").ModelCreationType<{
+                internetAccountType: string;
+                authInfo: any;
+            }> | undefined;
+        }> & import("@jbrowse/mobx-state-tree").NonEmptyObject)>>) | ({
+            locationType: "LocalPathLocation";
+            localPath: string;
+        } & import("@jbrowse/mobx-state-tree").NonEmptyObject & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").ITypeUnion<import("@jbrowse/mobx-state-tree").ModelCreationType<{
+            locationType: "UriLocation";
+            uri: string;
+            baseUri: string | undefined;
+            internetAccountId: string | undefined;
+            internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").ModelCreationType<{
+                internetAccountType: string;
+                authInfo: any;
+            }> | undefined;
+        }> | import("@jbrowse/mobx-state-tree").ModelCreationType<{
+            locationType: "BlobLocation";
+            name: string;
+            blobId: string;
+        }> | import("@jbrowse/mobx-state-tree").ModelCreationType<{
+            locationType: "LocalPathLocation";
+            localPath: string;
+        }>, {
+            locationType: "UriLocation";
+            uri: string;
+            internetAccountId: string | undefined;
+            internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
+                internetAccountType: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+                authInfo: import("@jbrowse/mobx-state-tree").IType<any, any, any>;
+            }> | undefined;
+        } | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
+            locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
+            name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+            blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        }> | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
+            locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
+            localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        }>, import("@jbrowse/mobx-state-tree").ModelInstanceType<{
+            locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
+            name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+            blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        }, {}> | import("@jbrowse/mobx-state-tree").ModelInstanceType<{
+            locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
+            localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        }, {}> | ({
+            locationType: "UriLocation";
+            uri: string;
+        } & Partial<{
+            locationType: "UriLocation";
+            uri: string;
+            baseUri: string | undefined;
+            internetAccountId: string | undefined;
+            internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").ModelCreationType<{
+                internetAccountType: string;
+                authInfo: any;
+            }> | undefined;
+        }> & import("@jbrowse/mobx-state-tree").NonEmptyObject)>>) | ({
+            locationType: "UriLocation";
+            uri: string;
+        } & Partial<{
+            locationType: "UriLocation";
+            uri: string;
+            baseUri: string | undefined;
+            internetAccountId: string | undefined;
+            internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").ModelCreationType<{
+                internetAccountType: string;
+                authInfo: any;
+            }> | undefined;
+        }> & import("@jbrowse/mobx-state-tree").NonEmptyObject & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").ITypeUnion<import("@jbrowse/mobx-state-tree").ModelCreationType<{
+            locationType: "UriLocation";
+            uri: string;
+            baseUri: string | undefined;
+            internetAccountId: string | undefined;
+            internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").ModelCreationType<{
+                internetAccountType: string;
+                authInfo: any;
+            }> | undefined;
+        }> | import("@jbrowse/mobx-state-tree").ModelCreationType<{
+            locationType: "BlobLocation";
+            name: string;
+            blobId: string;
+        }> | import("@jbrowse/mobx-state-tree").ModelCreationType<{
+            locationType: "LocalPathLocation";
+            localPath: string;
+        }>, {
+            locationType: "UriLocation";
+            uri: string;
+            internetAccountId: string | undefined;
+            internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
+                internetAccountType: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+                authInfo: import("@jbrowse/mobx-state-tree").IType<any, any, any>;
+            }> | undefined;
+        } | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
+            locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
+            name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+            blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        }> | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
+            locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
+            localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        }>, import("@jbrowse/mobx-state-tree").ModelInstanceType<{
+            locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
+            name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+            blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        }, {}> | import("@jbrowse/mobx-state-tree").ModelInstanceType<{
+            locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
+            localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        }, {}> | ({
+            locationType: "UriLocation";
+            uri: string;
+        } & Partial<{
+            locationType: "UriLocation";
+            uri: string;
+            baseUri: string | undefined;
+            internetAccountId: string | undefined;
+            internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").ModelCreationType<{
+                internetAccountType: string;
+                authInfo: any;
+            }> | undefined;
+        }> & import("@jbrowse/mobx-state-tree").NonEmptyObject)>>);
+        options: OntologyStoreOptions & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IType<OntologyStoreOptions, OntologyStoreOptions, OntologyStoreOptions>>;
+        equivalentTypes: import("@jbrowse/mobx-state-tree").IMSTMap<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").ISimpleType<string>>> & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IMapType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").ISimpleType<string>>>>;
+    } & import("@jbrowse/mobx-state-tree").NonEmptyObject & {
+        dataStore: undefined | OntologyStore;
+        startedEquivalentTypeRequests: Set<string>;
+    } & {
+        /** does nothing, just used to access the model to force its lifecycle hooks to run */
+        ping(): void;
+        initDataStore(): void;
+        afterCreate(): void;
+        setEquivalentTypes(type: string, equivalentTypes: string[]): void;
+    } & {
+        loadEquivalentTypes: (type: string) => Promise<void>;
+    } & {
+        afterCreate(): void;
+        setEquivalentTypes(type: string, equivalentTypes: string[]): void;
+    } & {
+        isTypeOf(queryType: string, typeOf: string): boolean;
+    } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IModelType<{
+        name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        version: import("@jbrowse/mobx-state-tree").IType<string | undefined, string, string>;
+        source: import("@jbrowse/mobx-state-tree").ITypeUnion<import("@jbrowse/mobx-state-tree").ModelCreationType<{
+            locationType: "UriLocation";
+            uri: string;
+            baseUri: string | undefined;
+            internetAccountId: string | undefined;
+            internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").ModelCreationType<{
+                internetAccountType: string;
+                authInfo: any;
+            }> | undefined;
+        }> | import("@jbrowse/mobx-state-tree").ModelCreationType<{
+            locationType: "BlobLocation";
+            name: string;
+            blobId: string;
+        }> | import("@jbrowse/mobx-state-tree").ModelCreationType<{
+            locationType: "LocalPathLocation";
+            localPath: string;
+        }>, {
+            locationType: "UriLocation";
+            uri: string;
+            internetAccountId: string | undefined;
+            internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
+                internetAccountType: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+                authInfo: import("@jbrowse/mobx-state-tree").IType<any, any, any>;
+            }> | undefined;
+        } | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
+            locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
+            name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+            blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        }> | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
+            locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
+            localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        }>, import("@jbrowse/mobx-state-tree").ModelInstanceType<{
+            locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
+            name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+            blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        }, {}> | import("@jbrowse/mobx-state-tree").ModelInstanceType<{
+            locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
+            localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        }, {}> | ({
+            locationType: "UriLocation";
+            uri: string;
+        } & Partial<{
+            locationType: "UriLocation";
+            uri: string;
+            baseUri: string | undefined;
+            internetAccountId: string | undefined;
+            internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").ModelCreationType<{
+                internetAccountType: string;
+                authInfo: any;
+            }> | undefined;
+        }> & import("@jbrowse/mobx-state-tree").NonEmptyObject)>;
+        options: import("@jbrowse/mobx-state-tree").IType<OntologyStoreOptions, OntologyStoreOptions, OntologyStoreOptions>;
+        equivalentTypes: import("@jbrowse/mobx-state-tree").IMapType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").ISimpleType<string>>>;
+    }, {
+        dataStore: undefined | OntologyStore;
+        startedEquivalentTypeRequests: Set<string>;
+    } & {
+        /** does nothing, just used to access the model to force its lifecycle hooks to run */
+        ping(): void;
+        initDataStore(): void;
+        afterCreate(): void;
+        setEquivalentTypes(type: string, equivalentTypes: string[]): void;
+    } & {
+        loadEquivalentTypes: (type: string) => Promise<void>;
+    } & {
+        afterCreate(): void;
+        setEquivalentTypes(type: string, equivalentTypes: string[]): void;
+    } & {
+        isTypeOf(queryType: string, typeOf: string): boolean;
+    }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>) | undefined;
+    findOntology(name: string, version?: string): ({
+        name: string;
+        version: string;
+        source: ({
+            locationType: "BlobLocation";
+            name: string;
+            blobId: string;
+        } & import("@jbrowse/mobx-state-tree").NonEmptyObject & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").ITypeUnion<import("@jbrowse/mobx-state-tree").ModelCreationType<{
+            locationType: "UriLocation";
+            uri: string;
+            baseUri: string | undefined;
+            internetAccountId: string | undefined;
+            internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").ModelCreationType<{
+                internetAccountType: string;
+                authInfo: any;
+            }> | undefined;
+        }> | import("@jbrowse/mobx-state-tree").ModelCreationType<{
+            locationType: "BlobLocation";
+            name: string;
+            blobId: string;
+        }> | import("@jbrowse/mobx-state-tree").ModelCreationType<{
+            locationType: "LocalPathLocation";
+            localPath: string;
+        }>, {
+            locationType: "UriLocation";
+            uri: string;
+            internetAccountId: string | undefined;
+            internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
+                internetAccountType: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+                authInfo: import("@jbrowse/mobx-state-tree").IType<any, any, any>;
+            }> | undefined;
+        } | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
+            locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
+            name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+            blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        }> | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
+            locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
+            localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        }>, import("@jbrowse/mobx-state-tree").ModelInstanceType<{
+            locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
+            name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+            blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        }, {}> | import("@jbrowse/mobx-state-tree").ModelInstanceType<{
+            locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
+            localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        }, {}> | ({
+            locationType: "UriLocation";
+            uri: string;
+        } & Partial<{
+            locationType: "UriLocation";
+            uri: string;
+            baseUri: string | undefined;
+            internetAccountId: string | undefined;
+            internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").ModelCreationType<{
+                internetAccountType: string;
+                authInfo: any;
+            }> | undefined;
+        }> & import("@jbrowse/mobx-state-tree").NonEmptyObject)>>) | ({
+            locationType: "LocalPathLocation";
+            localPath: string;
+        } & import("@jbrowse/mobx-state-tree").NonEmptyObject & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").ITypeUnion<import("@jbrowse/mobx-state-tree").ModelCreationType<{
+            locationType: "UriLocation";
+            uri: string;
+            baseUri: string | undefined;
+            internetAccountId: string | undefined;
+            internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").ModelCreationType<{
+                internetAccountType: string;
+                authInfo: any;
+            }> | undefined;
+        }> | import("@jbrowse/mobx-state-tree").ModelCreationType<{
+            locationType: "BlobLocation";
+            name: string;
+            blobId: string;
+        }> | import("@jbrowse/mobx-state-tree").ModelCreationType<{
+            locationType: "LocalPathLocation";
+            localPath: string;
+        }>, {
+            locationType: "UriLocation";
+            uri: string;
+            internetAccountId: string | undefined;
+            internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
+                internetAccountType: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+                authInfo: import("@jbrowse/mobx-state-tree").IType<any, any, any>;
+            }> | undefined;
+        } | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
+            locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
+            name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+            blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        }> | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
+            locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
+            localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        }>, import("@jbrowse/mobx-state-tree").ModelInstanceType<{
+            locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
+            name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+            blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        }, {}> | import("@jbrowse/mobx-state-tree").ModelInstanceType<{
+            locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
+            localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        }, {}> | ({
+            locationType: "UriLocation";
+            uri: string;
+        } & Partial<{
+            locationType: "UriLocation";
+            uri: string;
+            baseUri: string | undefined;
+            internetAccountId: string | undefined;
+            internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").ModelCreationType<{
+                internetAccountType: string;
+                authInfo: any;
+            }> | undefined;
+        }> & import("@jbrowse/mobx-state-tree").NonEmptyObject)>>) | ({
+            locationType: "UriLocation";
+            uri: string;
+        } & Partial<{
+            locationType: "UriLocation";
+            uri: string;
+            baseUri: string | undefined;
+            internetAccountId: string | undefined;
+            internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").ModelCreationType<{
+                internetAccountType: string;
+                authInfo: any;
+            }> | undefined;
+        }> & import("@jbrowse/mobx-state-tree").NonEmptyObject & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").ITypeUnion<import("@jbrowse/mobx-state-tree").ModelCreationType<{
+            locationType: "UriLocation";
+            uri: string;
+            baseUri: string | undefined;
+            internetAccountId: string | undefined;
+            internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").ModelCreationType<{
+                internetAccountType: string;
+                authInfo: any;
+            }> | undefined;
+        }> | import("@jbrowse/mobx-state-tree").ModelCreationType<{
+            locationType: "BlobLocation";
+            name: string;
+            blobId: string;
+        }> | import("@jbrowse/mobx-state-tree").ModelCreationType<{
+            locationType: "LocalPathLocation";
+            localPath: string;
+        }>, {
+            locationType: "UriLocation";
+            uri: string;
+            internetAccountId: string | undefined;
+            internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
+                internetAccountType: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+                authInfo: import("@jbrowse/mobx-state-tree").IType<any, any, any>;
+            }> | undefined;
+        } | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
+            locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
+            name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+            blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        }> | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
+            locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
+            localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        }>, import("@jbrowse/mobx-state-tree").ModelInstanceType<{
+            locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
+            name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+            blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        }, {}> | import("@jbrowse/mobx-state-tree").ModelInstanceType<{
+            locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
+            localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        }, {}> | ({
+            locationType: "UriLocation";
+            uri: string;
+        } & Partial<{
+            locationType: "UriLocation";
+            uri: string;
+            baseUri: string | undefined;
+            internetAccountId: string | undefined;
+            internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").ModelCreationType<{
+                internetAccountType: string;
+                authInfo: any;
+            }> | undefined;
+        }> & import("@jbrowse/mobx-state-tree").NonEmptyObject)>>);
+        options: OntologyStoreOptions & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IType<OntologyStoreOptions, OntologyStoreOptions, OntologyStoreOptions>>;
+        equivalentTypes: import("@jbrowse/mobx-state-tree").IMSTMap<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").ISimpleType<string>>> & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IMapType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").ISimpleType<string>>>>;
+    } & import("@jbrowse/mobx-state-tree").NonEmptyObject & {
+        dataStore: undefined | OntologyStore;
+        startedEquivalentTypeRequests: Set<string>;
+    } & {
+        /** does nothing, just used to access the model to force its lifecycle hooks to run */
+        ping(): void;
+        initDataStore(): void;
+        afterCreate(): void;
+        setEquivalentTypes(type: string, equivalentTypes: string[]): void;
+    } & {
+        loadEquivalentTypes: (type: string) => Promise<void>;
+    } & {
+        afterCreate(): void;
+        setEquivalentTypes(type: string, equivalentTypes: string[]): void;
+    } & {
+        isTypeOf(queryType: string, typeOf: string): boolean;
+    } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IModelType<{
+        name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        version: import("@jbrowse/mobx-state-tree").IType<string | undefined, string, string>;
+        source: import("@jbrowse/mobx-state-tree").ITypeUnion<import("@jbrowse/mobx-state-tree").ModelCreationType<{
+            locationType: "UriLocation";
+            uri: string;
+            baseUri: string | undefined;
+            internetAccountId: string | undefined;
+            internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").ModelCreationType<{
+                internetAccountType: string;
+                authInfo: any;
+            }> | undefined;
+        }> | import("@jbrowse/mobx-state-tree").ModelCreationType<{
+            locationType: "BlobLocation";
+            name: string;
+            blobId: string;
+        }> | import("@jbrowse/mobx-state-tree").ModelCreationType<{
+            locationType: "LocalPathLocation";
+            localPath: string;
+        }>, {
+            locationType: "UriLocation";
+            uri: string;
+            internetAccountId: string | undefined;
+            internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
+                internetAccountType: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+                authInfo: import("@jbrowse/mobx-state-tree").IType<any, any, any>;
+            }> | undefined;
+        } | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
+            locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
+            name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+            blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        }> | import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
+            locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
+            localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        }>, import("@jbrowse/mobx-state-tree").ModelInstanceType<{
+            locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"BlobLocation">;
+            name: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+            blobId: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        }, {}> | import("@jbrowse/mobx-state-tree").ModelInstanceType<{
+            locationType: import("@jbrowse/mobx-state-tree").ISimpleType<"LocalPathLocation">;
+            localPath: import("@jbrowse/mobx-state-tree").ISimpleType<string>;
+        }, {}> | ({
+            locationType: "UriLocation";
+            uri: string;
+        } & Partial<{
+            locationType: "UriLocation";
+            uri: string;
+            baseUri: string | undefined;
+            internetAccountId: string | undefined;
+            internetAccountPreAuthorization: import("@jbrowse/mobx-state-tree").ModelCreationType<{
+                internetAccountType: string;
+                authInfo: any;
+            }> | undefined;
+        }> & import("@jbrowse/mobx-state-tree").NonEmptyObject)>;
+        options: import("@jbrowse/mobx-state-tree").IType<OntologyStoreOptions, OntologyStoreOptions, OntologyStoreOptions>;
+        equivalentTypes: import("@jbrowse/mobx-state-tree").IMapType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").ISimpleType<string>>>;
+    }, {
+        dataStore: undefined | OntologyStore;
+        startedEquivalentTypeRequests: Set<string>;
+    } & {
+        /** does nothing, just used to access the model to force its lifecycle hooks to run */
+        ping(): void;
+        initDataStore(): void;
+        afterCreate(): void;
+        setEquivalentTypes(type: string, equivalentTypes: string[]): void;
+    } & {
+        loadEquivalentTypes: (type: string) => Promise<void>;
+    } & {
+        afterCreate(): void;
+        setEquivalentTypes(type: string, equivalentTypes: string[]): void;
+    } & {
+        isTypeOf(queryType: string, typeOf: string): boolean;
+    }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>) | undefined;
+    openOntology(name: string, version?: string): OntologyStore | undefined;
+    /**
+     * compact the given URI using the currently configured
+     * prefixes
+     */
+    applyPrefixes(uri: string): string;
+    /**
+     * expand the given compacted URI using the currently
+     * configured prefixes
+     */
+    expandPrefixes(uri: string): string;
+} & {
+    addOntology(name: string, version: string, source: Instance<typeof LocalPathLocation> | Instance<typeof UriLocation>, options?: OntologyStoreOptions): void;
+}, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>;
+export default OntologyManagerType;
+export type { OntologyClass, OntologyProperty, OntologyTerm, TextIndexFieldDefinition, } from './OntologyStore/types';
+export { defaultTextIndexFields, isOntologyClass, isOntologyProperty, } from './OntologyStore/types';
+export declare const OntologyRecordConfiguration: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+    name: {
+        type: string;
+        description: string;
+        defaultValue: string;
+    };
+    version: {
+        type: string;
+        description: string;
+        defaultValue: string;
+    };
+    source: {
+        type: string;
+        description: string;
+        defaultValue: {
+            locationType: string;
+            uri: string;
+        };
+    };
+    textIndexFields: {
+        type: string;
+        description: string;
+        defaultValue: import("./OntologyStore/types").TextIndexFieldDefinition[];
+    };
+}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+export interface OntologyManager extends Instance<typeof OntologyManagerType> {
+}
+export interface OntologyRecord extends Instance<typeof OntologyRecordType> {
+}
+//# sourceMappingURL=index.d.ts.map