@jbrowse/embedded-core 4.2.1 → 5.0.0-beta.1

package/esm/createEmbeddedRootModel.d.ts

@@ -0,0 +1,1900 @@
+import TextSearchManager from '@jbrowse/core/TextSearch/TextSearchManager';
+import RpcManager from '@jbrowse/core/rpc/RpcManager';
+import type PluginManager from '@jbrowse/core/PluginManager';
+import type { IAnyModelType, SnapshotIn } from '@jbrowse/mobx-state-tree';
+import type { SessionSnapshot } from '@jbrowse/product-core';
+interface SessionWithSetName {
+    setName: (name: string) => void;
+}
+/**
+ * #stateModel EmbeddedRootModel
+ * #category root
+ * Root model shared by the single-view embedded products
+ * (react-linear-genome-view, react-circular-genome-view). Each product supplies
+ * its own model name, version, and session model, and may `.props()` on extra
+ * fields (e.g. the LGV `disableAddTracks`/`drawerViewHeight`). Internet accounts
+ * come from the same product-core mixin the web/desktop root models use, so
+ * config `internetAccounts` are auto-initialized (no manual wiring needed).
+ */
+export declare function createEmbeddedRootModel<SESSION extends IAnyModelType & {
+    Type: SessionWithSetName;
+}>({ name, version, pluginManager, sessionModelType, makeWorkerInstance, }: {
+    name: string;
+    version: string;
+    pluginManager: PluginManager;
+    sessionModelType: SESSION;
+    makeWorkerInstance?: () => Worker;
+}): import("@jbrowse/mobx-state-tree").IModelType<Omit<import("@jbrowse/mobx-state-tree").ModelPropertiesDeclarationToProperties<{
+    /**
+     * #property
+     */
+    config: import("@jbrowse/mobx-state-tree").IModelType<{
+        configuration: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+            readonly rpc: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+                readonly defaultDriver: {
+                    readonly type: "string";
+                    readonly description: "the RPC driver to run data fetching on: MainThreadRpcDriver or WebWorkerRpcDriver. Leave empty to use the default for this application";
+                    readonly defaultValue: "";
+                    readonly advanced: true;
+                };
+                readonly workerCount: {
+                    readonly type: "number";
+                    readonly description: "The number of workers to use. If 0 (the default) JBrowse will decide how many workers to use.";
+                    readonly defaultValue: 0;
+                    readonly advanced: true;
+                };
+            }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+            readonly hierarchical: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+                readonly sort: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+                    readonly trackNames: {
+                        readonly type: "boolean";
+                        readonly defaultValue: false;
+                    };
+                    readonly categories: {
+                        readonly type: "boolean";
+                        readonly defaultValue: false;
+                    };
+                }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+                readonly defaultFolderCategories: {
+                    readonly type: "stringArray";
+                    readonly description: "list of category names to display as folders by default";
+                    readonly defaultValue: readonly [];
+                };
+                readonly defaultCollapsed: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+                    readonly categoryNames: {
+                        readonly type: "stringArray";
+                        readonly defaultValue: readonly [];
+                    };
+                    readonly topLevelCategories: {
+                        readonly type: "boolean";
+                        readonly defaultValue: false;
+                    };
+                    readonly subCategories: {
+                        readonly type: "boolean";
+                        readonly defaultValue: false;
+                    };
+                }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+            }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+            readonly preferences: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+                readonly animationMode: {
+                    readonly model: import("@jbrowse/mobx-state-tree").ISimpleType<"disabled" | "enabled" | "system">;
+                    readonly type: "stringEnum";
+                    readonly defaultValue: "enabled";
+                };
+                readonly scrollZoom: {
+                    readonly type: "boolean";
+                    readonly defaultValue: false;
+                };
+                readonly numberGrouping: {
+                    readonly type: "boolean";
+                    readonly defaultValue: true;
+                };
+                readonly useWorkspaces: {
+                    readonly type: "boolean";
+                    readonly defaultValue: false;
+                };
+            }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+            readonly formatDetails: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+                readonly feature: {
+                    readonly type: "frozen";
+                    readonly description: "adds extra fields to the feature details";
+                    readonly defaultValue: {};
+                    readonly contextVariable: ["feature"];
+                };
+                readonly subfeatures: {
+                    readonly type: "frozen";
+                    readonly description: "adds extra fields to the subfeatures of a feature";
+                    readonly defaultValue: {};
+                    readonly contextVariable: ["feature"];
+                };
+                readonly depth: {
+                    readonly type: "maybeNumber";
+                    readonly description: "levels of subfeature the formatDetails.subfeatures callback runs on, default 2";
+                };
+                readonly maxDepth: {
+                    readonly type: "maybeNumber";
+                    readonly description: "hide subfeatures nested deeper than this, default no limit";
+                };
+            }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+            readonly formatAbout: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+                readonly config: {
+                    readonly type: "frozen";
+                    readonly description: "formats configuration object in about dialog";
+                    readonly defaultValue: {};
+                    readonly contextVariable: ["config"];
+                };
+                readonly hideUris: {
+                    readonly type: "boolean";
+                    readonly defaultValue: false;
+                };
+            }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+            readonly theme: {
+                readonly type: "frozen";
+                readonly defaultValue: {};
+            };
+        }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+        assembly: import("@jbrowse/mobx-state-tree").IAnyType;
+        tracks: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyType>;
+        internetAccounts: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyType>;
+        connections: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyType>;
+        aggregateTextSearchAdapters: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyType>;
+        plugins: import("@jbrowse/mobx-state-tree").IType<any, any, any>;
+    }, {
+        readonly assemblies: any[];
+        readonly assemblyName: string;
+        readonly rpcManager: RpcManager;
+    }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>;
+    /**
+     * #property
+     */
+    session: SESSION;
+    /**
+     * #property
+     */
+    assemblyManager: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IModelType<{
+        assemblies: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IModelType<{
+            configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<import("@jbrowse/mobx-state-tree").IAnyType>>;
+        }, {
+            error: unknown;
+            loadingP: Promise<void> | undefined;
+            adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
+            volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+            canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
+            cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+            loadedGeneticCodes: Record<string, number> | undefined;
+            lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+            statusMessage: string | undefined;
+            statusProgress: number | undefined;
+            statusSource: string | undefined;
+            refNameMismatches: Map<string, import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch>;
+        } & {
+            getConf(arg: string): any;
+        } & {
+            readonly name: string;
+            readonly aliases: string[];
+            readonly displayName: string;
+            readonly refNameColors: string[];
+        } & {
+            readonly allAliases: string[];
+            hasName(name: string): boolean;
+        } & {
+            setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
+            setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
+        } & {
+            setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
+                regions: import("@jbrowse/core/util").Region[];
+                cytobands: import("@jbrowse/core/util").Feature[];
+                geneticCodes: Record<string, number>;
+            }): void;
+            setError(e: unknown): void;
+            setLoadingP(p?: Promise<void>): void;
+            loadPre(): Promise<void>;
+        } & {
+            load(): Promise<void>;
+        } & {
+            afterAttach(): void;
+        } & {
+            readonly initialized: boolean;
+            readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            readonly allRefNames: string[] | undefined;
+            readonly namesByCanonicalRefName: Map<string, string[]> | undefined;
+            readonly rpcManager: RpcManager;
+        } & {
+            readonly refNames: string[] | undefined;
+        } & {
+            readonly refNameToIndex: Map<string, number> | undefined;
+        } & {
+            getCanonicalRefName(refName: string): string | undefined;
+            getRefNameColor(refName: string): string | undefined;
+            getRegionForRefName(refName: string): import("@jbrowse/core/assemblyManager/assembly").BasicRegion | undefined;
+            getGeneticCodeId(refName: string): number;
+            getSeqAdapterRefName(canonicalRefName: string): string;
+        } & {
+            getCanonicalRefName2(refName: string): string;
+            isValidRefName(refName: string): boolean;
+        } & {
+            getAliasesForRefName(refName: string): string[];
+            getRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
+            getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
+        }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
+    }, {
+        unrecognizedReports: {
+            report(session: unknown, name: string, handlerCount: number, fire: () => unknown): void;
+            reportFor(session: unknown, name: string): {
+                handled: boolean;
+                claim?: Promise<void>;
+            } | undefined;
+        };
+    } & {
+        readonly assemblyNameMap: Record<string, import("@jbrowse/mobx-state-tree").ModelInstanceTypeProps<{
+            configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<import("@jbrowse/mobx-state-tree").IAnyType>>;
+        }> & {
+            error: unknown;
+            loadingP: Promise<void> | undefined;
+            adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
+            volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+            canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
+            cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+            loadedGeneticCodes: Record<string, number> | undefined;
+            lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+            statusMessage: string | undefined;
+            statusProgress: number | undefined;
+            statusSource: string | undefined;
+            refNameMismatches: Map<string, import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch>;
+        } & {
+            getConf(arg: string): any;
+        } & {
+            readonly name: string;
+            readonly aliases: string[];
+            readonly displayName: string;
+            readonly refNameColors: string[];
+        } & {
+            readonly allAliases: string[];
+            hasName(name: string): boolean;
+        } & {
+            setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
+            setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
+        } & {
+            setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
+                regions: import("@jbrowse/core/util").Region[];
+                cytobands: import("@jbrowse/core/util").Feature[];
+                geneticCodes: Record<string, number>;
+            }): void;
+            setError(e: unknown): void;
+            setLoadingP(p?: Promise<void>): void;
+            loadPre(): Promise<void>;
+        } & {
+            load(): Promise<void>;
+        } & {
+            afterAttach(): void;
+        } & {
+            readonly initialized: boolean;
+            readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            readonly allRefNames: string[] | undefined;
+            readonly namesByCanonicalRefName: Map<string, string[]> | undefined;
+            readonly rpcManager: RpcManager;
+        } & {
+            readonly refNames: string[] | undefined;
+        } & {
+            readonly refNameToIndex: Map<string, number> | undefined;
+        } & {
+            getCanonicalRefName(refName: string): string | undefined;
+            getRefNameColor(refName: string): string | undefined;
+            getRegionForRefName(refName: string): import("@jbrowse/core/assemblyManager/assembly").BasicRegion | undefined;
+            getGeneticCodeId(refName: string): number;
+            getSeqAdapterRefName(canonicalRefName: string): string;
+        } & {
+            getCanonicalRefName2(refName: string): string;
+            isValidRefName(refName: string): boolean;
+        } & {
+            getAliasesForRefName(refName: string): string[];
+            getRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
+            getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
+        } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IModelType<{
+            configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<import("@jbrowse/mobx-state-tree").IAnyType>>;
+        }, {
+            error: unknown;
+            loadingP: Promise<void> | undefined;
+            adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
+            volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+            canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
+            cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+            loadedGeneticCodes: Record<string, number> | undefined;
+            lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+            statusMessage: string | undefined;
+            statusProgress: number | undefined;
+            statusSource: string | undefined;
+            refNameMismatches: Map<string, import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch>;
+        } & {
+            getConf(arg: string): any;
+        } & {
+            readonly name: string;
+            readonly aliases: string[];
+            readonly displayName: string;
+            readonly refNameColors: string[];
+        } & {
+            readonly allAliases: string[];
+            hasName(name: string): boolean;
+        } & {
+            setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
+            setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
+        } & {
+            setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
+                regions: import("@jbrowse/core/util").Region[];
+                cytobands: import("@jbrowse/core/util").Feature[];
+                geneticCodes: Record<string, number>;
+            }): void;
+            setError(e: unknown): void;
+            setLoadingP(p?: Promise<void>): void;
+            loadPre(): Promise<void>;
+        } & {
+            load(): Promise<void>;
+        } & {
+            afterAttach(): void;
+        } & {
+            readonly initialized: boolean;
+            readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            readonly allRefNames: string[] | undefined;
+            readonly namesByCanonicalRefName: Map<string, string[]> | undefined;
+            readonly rpcManager: RpcManager;
+        } & {
+            readonly refNames: string[] | undefined;
+        } & {
+            readonly refNameToIndex: Map<string, number> | undefined;
+        } & {
+            getCanonicalRefName(refName: string): string | undefined;
+            getRefNameColor(refName: string): string | undefined;
+            getRegionForRefName(refName: string): import("@jbrowse/core/assemblyManager/assembly").BasicRegion | undefined;
+            getGeneticCodeId(refName: string): number;
+            getSeqAdapterRefName(canonicalRefName: string): string;
+        } & {
+            getCanonicalRefName2(refName: string): string;
+            isValidRefName(refName: string): boolean;
+        } & {
+            getAliasesForRefName(refName: string): string[];
+            getRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
+            getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
+        }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>>;
+    } & {
+        getCanonicalAssemblyName(asmName: string): string | undefined;
+        getDisplayName(asmName: string): string;
+        get(asmName: string): (import("@jbrowse/mobx-state-tree").ModelInstanceTypeProps<{
+            configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<import("@jbrowse/mobx-state-tree").IAnyType>>;
+        }> & {
+            error: unknown;
+            loadingP: Promise<void> | undefined;
+            adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
+            volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+            canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
+            cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+            loadedGeneticCodes: Record<string, number> | undefined;
+            lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+            statusMessage: string | undefined;
+            statusProgress: number | undefined;
+            statusSource: string | undefined;
+            refNameMismatches: Map<string, import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch>;
+        } & {
+            getConf(arg: string): any;
+        } & {
+            readonly name: string;
+            readonly aliases: string[];
+            readonly displayName: string;
+            readonly refNameColors: string[];
+        } & {
+            readonly allAliases: string[];
+            hasName(name: string): boolean;
+        } & {
+            setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
+            setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
+        } & {
+            setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
+                regions: import("@jbrowse/core/util").Region[];
+                cytobands: import("@jbrowse/core/util").Feature[];
+                geneticCodes: Record<string, number>;
+            }): void;
+            setError(e: unknown): void;
+            setLoadingP(p?: Promise<void>): void;
+            loadPre(): Promise<void>;
+        } & {
+            load(): Promise<void>;
+        } & {
+            afterAttach(): void;
+        } & {
+            readonly initialized: boolean;
+            readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            readonly allRefNames: string[] | undefined;
+            readonly namesByCanonicalRefName: Map<string, string[]> | undefined;
+            readonly rpcManager: RpcManager;
+        } & {
+            readonly refNames: string[] | undefined;
+        } & {
+            readonly refNameToIndex: Map<string, number> | undefined;
+        } & {
+            getCanonicalRefName(refName: string): string | undefined;
+            getRefNameColor(refName: string): string | undefined;
+            getRegionForRefName(refName: string): import("@jbrowse/core/assemblyManager/assembly").BasicRegion | undefined;
+            getGeneticCodeId(refName: string): number;
+            getSeqAdapterRefName(canonicalRefName: string): string;
+        } & {
+            getCanonicalRefName2(refName: string): string;
+            isValidRefName(refName: string): boolean;
+        } & {
+            getAliasesForRefName(refName: string): string[];
+            getRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
+            getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
+        } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IModelType<{
+            configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<import("@jbrowse/mobx-state-tree").IAnyType>>;
+        }, {
+            error: unknown;
+            loadingP: Promise<void> | undefined;
+            adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
+            volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+            canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
+            cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+            loadedGeneticCodes: Record<string, number> | undefined;
+            lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+            statusMessage: string | undefined;
+            statusProgress: number | undefined;
+            statusSource: string | undefined;
+            refNameMismatches: Map<string, import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch>;
+        } & {
+            getConf(arg: string): any;
+        } & {
+            readonly name: string;
+            readonly aliases: string[];
+            readonly displayName: string;
+            readonly refNameColors: string[];
+        } & {
+            readonly allAliases: string[];
+            hasName(name: string): boolean;
+        } & {
+            setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
+            setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
+        } & {
+            setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
+                regions: import("@jbrowse/core/util").Region[];
+                cytobands: import("@jbrowse/core/util").Feature[];
+                geneticCodes: Record<string, number>;
+            }): void;
+            setError(e: unknown): void;
+            setLoadingP(p?: Promise<void>): void;
+            loadPre(): Promise<void>;
+        } & {
+            load(): Promise<void>;
+        } & {
+            afterAttach(): void;
+        } & {
+            readonly initialized: boolean;
+            readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            readonly allRefNames: string[] | undefined;
+            readonly namesByCanonicalRefName: Map<string, string[]> | undefined;
+            readonly rpcManager: RpcManager;
+        } & {
+            readonly refNames: string[] | undefined;
+        } & {
+            readonly refNameToIndex: Map<string, number> | undefined;
+        } & {
+            getCanonicalRefName(refName: string): string | undefined;
+            getRefNameColor(refName: string): string | undefined;
+            getRegionForRefName(refName: string): import("@jbrowse/core/assemblyManager/assembly").BasicRegion | undefined;
+            getGeneticCodeId(refName: string): number;
+            getSeqAdapterRefName(canonicalRefName: string): string;
+        } & {
+            getCanonicalRefName2(refName: string): string;
+            isValidRefName(refName: string): boolean;
+        } & {
+            getAliasesForRefName(refName: string): string[];
+            getRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
+            getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
+        }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>) | undefined;
+        has(asmName: string): boolean;
+        loadingAssembly(asmNames: string[]): (import("@jbrowse/mobx-state-tree").ModelInstanceTypeProps<{
+            configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<import("@jbrowse/mobx-state-tree").IAnyType>>;
+        }> & {
+            error: unknown;
+            loadingP: Promise<void> | undefined;
+            adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
+            volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+            canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
+            cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+            loadedGeneticCodes: Record<string, number> | undefined;
+            lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+            statusMessage: string | undefined;
+            statusProgress: number | undefined;
+            statusSource: string | undefined;
+            refNameMismatches: Map<string, import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch>;
+        } & {
+            getConf(arg: string): any;
+        } & {
+            readonly name: string;
+            readonly aliases: string[];
+            readonly displayName: string;
+            readonly refNameColors: string[];
+        } & {
+            readonly allAliases: string[];
+            hasName(name: string): boolean;
+        } & {
+            setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
+            setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
+        } & {
+            setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
+                regions: import("@jbrowse/core/util").Region[];
+                cytobands: import("@jbrowse/core/util").Feature[];
+                geneticCodes: Record<string, number>;
+            }): void;
+            setError(e: unknown): void;
+            setLoadingP(p?: Promise<void>): void;
+            loadPre(): Promise<void>;
+        } & {
+            load(): Promise<void>;
+        } & {
+            afterAttach(): void;
+        } & {
+            readonly initialized: boolean;
+            readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            readonly allRefNames: string[] | undefined;
+            readonly namesByCanonicalRefName: Map<string, string[]> | undefined;
+            readonly rpcManager: RpcManager;
+        } & {
+            readonly refNames: string[] | undefined;
+        } & {
+            readonly refNameToIndex: Map<string, number> | undefined;
+        } & {
+            getCanonicalRefName(refName: string): string | undefined;
+            getRefNameColor(refName: string): string | undefined;
+            getRegionForRefName(refName: string): import("@jbrowse/core/assemblyManager/assembly").BasicRegion | undefined;
+            getGeneticCodeId(refName: string): number;
+            getSeqAdapterRefName(canonicalRefName: string): string;
+        } & {
+            getCanonicalRefName2(refName: string): string;
+            isValidRefName(refName: string): boolean;
+        } & {
+            getAliasesForRefName(refName: string): string[];
+            getRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
+            getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
+        } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IModelType<{
+            configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<import("@jbrowse/mobx-state-tree").IAnyType>>;
+        }, {
+            error: unknown;
+            loadingP: Promise<void> | undefined;
+            adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
+            volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+            canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
+            cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+            loadedGeneticCodes: Record<string, number> | undefined;
+            lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+            statusMessage: string | undefined;
+            statusProgress: number | undefined;
+            statusSource: string | undefined;
+            refNameMismatches: Map<string, import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch>;
+        } & {
+            getConf(arg: string): any;
+        } & {
+            readonly name: string;
+            readonly aliases: string[];
+            readonly displayName: string;
+            readonly refNameColors: string[];
+        } & {
+            readonly allAliases: string[];
+            hasName(name: string): boolean;
+        } & {
+            setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
+            setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
+        } & {
+            setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
+                regions: import("@jbrowse/core/util").Region[];
+                cytobands: import("@jbrowse/core/util").Feature[];
+                geneticCodes: Record<string, number>;
+            }): void;
+            setError(e: unknown): void;
+            setLoadingP(p?: Promise<void>): void;
+            loadPre(): Promise<void>;
+        } & {
+            load(): Promise<void>;
+        } & {
+            afterAttach(): void;
+        } & {
+            readonly initialized: boolean;
+            readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            readonly allRefNames: string[] | undefined;
+            readonly namesByCanonicalRefName: Map<string, string[]> | undefined;
+            readonly rpcManager: RpcManager;
+        } & {
+            readonly refNames: string[] | undefined;
+        } & {
+            readonly refNameToIndex: Map<string, number> | undefined;
+        } & {
+            getCanonicalRefName(refName: string): string | undefined;
+            getRefNameColor(refName: string): string | undefined;
+            getRegionForRefName(refName: string): import("@jbrowse/core/assemblyManager/assembly").BasicRegion | undefined;
+            getGeneticCodeId(refName: string): number;
+            getSeqAdapterRefName(canonicalRefName: string): string;
+        } & {
+            getCanonicalRefName2(refName: string): string;
+            isValidRefName(refName: string): boolean;
+        } & {
+            getAliasesForRefName(refName: string): string[];
+            getRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
+            getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
+        }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>) | undefined;
+        readonly assemblyNamesList: string[];
+        readonly configuredAssemblyNames: Set<string>;
+        readonly assemblyList: (import("@jbrowse/mobx-state-tree").ModelInstanceTypeProps<Record<string, any>> & {
+            setSubschema(slotName: string, data: Record<string, unknown>): any;
+            setSlot(slotName: string, value: unknown): void;
+        } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>)[];
+        readonly rpcManager: RpcManager;
+    } & {
+        settleAssemblyResolution(assemblyName: string): Promise<void>;
+    } & {
+        waitForAssembly(assemblyName: string): Promise<(import("@jbrowse/mobx-state-tree").ModelInstanceTypeProps<{
+            configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<import("@jbrowse/mobx-state-tree").IAnyType>>;
+        }> & {
+            error: unknown;
+            loadingP: Promise<void> | undefined;
+            adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
+            volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+            canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
+            cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+            loadedGeneticCodes: Record<string, number> | undefined;
+            lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+            statusMessage: string | undefined;
+            statusProgress: number | undefined;
+            statusSource: string | undefined;
+            refNameMismatches: Map<string, import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch>;
+        } & {
+            getConf(arg: string): any;
+        } & {
+            readonly name: string;
+            readonly aliases: string[];
+            readonly displayName: string;
+            readonly refNameColors: string[];
+        } & {
+            readonly allAliases: string[];
+            hasName(name: string): boolean;
+        } & {
+            setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
+            setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
+        } & {
+            setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
+                regions: import("@jbrowse/core/util").Region[];
+                cytobands: import("@jbrowse/core/util").Feature[];
+                geneticCodes: Record<string, number>;
+            }): void;
+            setError(e: unknown): void;
+            setLoadingP(p?: Promise<void>): void;
+            loadPre(): Promise<void>;
+        } & {
+            load(): Promise<void>;
+        } & {
+            afterAttach(): void;
+        } & {
+            readonly initialized: boolean;
+            readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            readonly allRefNames: string[] | undefined;
+            readonly namesByCanonicalRefName: Map<string, string[]> | undefined;
+            readonly rpcManager: RpcManager;
+        } & {
+            readonly refNames: string[] | undefined;
+        } & {
+            readonly refNameToIndex: Map<string, number> | undefined;
+        } & {
+            getCanonicalRefName(refName: string): string | undefined;
+            getRefNameColor(refName: string): string | undefined;
+            getRegionForRefName(refName: string): import("@jbrowse/core/assemblyManager/assembly").BasicRegion | undefined;
+            getGeneticCodeId(refName: string): number;
+            getSeqAdapterRefName(canonicalRefName: string): string;
+        } & {
+            getCanonicalRefName2(refName: string): string;
+            isValidRefName(refName: string): boolean;
+        } & {
+            getAliasesForRefName(refName: string): string[];
+            getRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
+            getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
+        } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IModelType<{
+            configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<import("@jbrowse/mobx-state-tree").IAnyType>>;
+        }, {
+            error: unknown;
+            loadingP: Promise<void> | undefined;
+            adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
+            volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+            canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
+            cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+            loadedGeneticCodes: Record<string, number> | undefined;
+            lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+            statusMessage: string | undefined;
+            statusProgress: number | undefined;
+            statusSource: string | undefined;
+            refNameMismatches: Map<string, import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch>;
+        } & {
+            getConf(arg: string): any;
+        } & {
+            readonly name: string;
+            readonly aliases: string[];
+            readonly displayName: string;
+            readonly refNameColors: string[];
+        } & {
+            readonly allAliases: string[];
+            hasName(name: string): boolean;
+        } & {
+            setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
+            setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
+        } & {
+            setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
+                regions: import("@jbrowse/core/util").Region[];
+                cytobands: import("@jbrowse/core/util").Feature[];
+                geneticCodes: Record<string, number>;
+            }): void;
+            setError(e: unknown): void;
+            setLoadingP(p?: Promise<void>): void;
+            loadPre(): Promise<void>;
+        } & {
+            load(): Promise<void>;
+        } & {
+            afterAttach(): void;
+        } & {
+            readonly initialized: boolean;
+            readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            readonly allRefNames: string[] | undefined;
+            readonly namesByCanonicalRefName: Map<string, string[]> | undefined;
+            readonly rpcManager: RpcManager;
+        } & {
+            readonly refNames: string[] | undefined;
+        } & {
+            readonly refNameToIndex: Map<string, number> | undefined;
+        } & {
+            getCanonicalRefName(refName: string): string | undefined;
+            getRefNameColor(refName: string): string | undefined;
+            getRegionForRefName(refName: string): import("@jbrowse/core/assemblyManager/assembly").BasicRegion | undefined;
+            getGeneticCodeId(refName: string): number;
+            getSeqAdapterRefName(canonicalRefName: string): string;
+        } & {
+            getCanonicalRefName2(refName: string): string;
+            isValidRefName(refName: string): boolean;
+        } & {
+            getAliasesForRefName(refName: string): string[];
+            getRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
+            getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
+        }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>) | undefined>;
+        requireAssembly(assemblyName: string): Promise<import("@jbrowse/mobx-state-tree").ModelInstanceTypeProps<{
+            configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<import("@jbrowse/mobx-state-tree").IAnyType>>;
+        }> & {
+            error: unknown;
+            loadingP: Promise<void> | undefined;
+            adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
+            volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+            canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
+            cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+            loadedGeneticCodes: Record<string, number> | undefined;
+            lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+            statusMessage: string | undefined;
+            statusProgress: number | undefined;
+            statusSource: string | undefined;
+            refNameMismatches: Map<string, import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch>;
+        } & {
+            getConf(arg: string): any;
+        } & {
+            readonly name: string;
+            readonly aliases: string[];
+            readonly displayName: string;
+            readonly refNameColors: string[];
+        } & {
+            readonly allAliases: string[];
+            hasName(name: string): boolean;
+        } & {
+            setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
+            setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
+        } & {
+            setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
+                regions: import("@jbrowse/core/util").Region[];
+                cytobands: import("@jbrowse/core/util").Feature[];
+                geneticCodes: Record<string, number>;
+            }): void;
+            setError(e: unknown): void;
+            setLoadingP(p?: Promise<void>): void;
+            loadPre(): Promise<void>;
+        } & {
+            load(): Promise<void>;
+        } & {
+            afterAttach(): void;
+        } & {
+            readonly initialized: boolean;
+            readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            readonly allRefNames: string[] | undefined;
+            readonly namesByCanonicalRefName: Map<string, string[]> | undefined;
+            readonly rpcManager: RpcManager;
+        } & {
+            readonly refNames: string[] | undefined;
+        } & {
+            readonly refNameToIndex: Map<string, number> | undefined;
+        } & {
+            getCanonicalRefName(refName: string): string | undefined;
+            getRefNameColor(refName: string): string | undefined;
+            getRegionForRefName(refName: string): import("@jbrowse/core/assemblyManager/assembly").BasicRegion | undefined;
+            getGeneticCodeId(refName: string): number;
+            getSeqAdapterRefName(canonicalRefName: string): string;
+        } & {
+            getCanonicalRefName2(refName: string): string;
+            isValidRefName(refName: string): boolean;
+        } & {
+            getAliasesForRefName(refName: string): string[];
+            getRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
+            getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
+        } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IModelType<{
+            configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<import("@jbrowse/mobx-state-tree").IAnyType>>;
+        }, {
+            error: unknown;
+            loadingP: Promise<void> | undefined;
+            adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
+            volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+            canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
+            cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+            loadedGeneticCodes: Record<string, number> | undefined;
+            lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+            statusMessage: string | undefined;
+            statusProgress: number | undefined;
+            statusSource: string | undefined;
+            refNameMismatches: Map<string, import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch>;
+        } & {
+            getConf(arg: string): any;
+        } & {
+            readonly name: string;
+            readonly aliases: string[];
+            readonly displayName: string;
+            readonly refNameColors: string[];
+        } & {
+            readonly allAliases: string[];
+            hasName(name: string): boolean;
+        } & {
+            setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
+            setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
+        } & {
+            setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
+                regions: import("@jbrowse/core/util").Region[];
+                cytobands: import("@jbrowse/core/util").Feature[];
+                geneticCodes: Record<string, number>;
+            }): void;
+            setError(e: unknown): void;
+            setLoadingP(p?: Promise<void>): void;
+            loadPre(): Promise<void>;
+        } & {
+            load(): Promise<void>;
+        } & {
+            afterAttach(): void;
+        } & {
+            readonly initialized: boolean;
+            readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            readonly allRefNames: string[] | undefined;
+            readonly namesByCanonicalRefName: Map<string, string[]> | undefined;
+            readonly rpcManager: RpcManager;
+        } & {
+            readonly refNames: string[] | undefined;
+        } & {
+            readonly refNameToIndex: Map<string, number> | undefined;
+        } & {
+            getCanonicalRefName(refName: string): string | undefined;
+            getRefNameColor(refName: string): string | undefined;
+            getRegionForRefName(refName: string): import("@jbrowse/core/assemblyManager/assembly").BasicRegion | undefined;
+            getGeneticCodeId(refName: string): number;
+            getSeqAdapterRefName(canonicalRefName: string): string;
+        } & {
+            getCanonicalRefName2(refName: string): string;
+            isValidRefName(refName: string): boolean;
+        } & {
+            getAliasesForRefName(refName: string): string[];
+            getRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
+            getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
+        }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>>;
+        getRefNameMapForAdapter(adapterConf: {
+            [x: string]: unknown;
+        }, assemblyName: string | undefined, opts: import("@jbrowse/core/assemblyManager").AssemblyBaseOpts): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
+        isValidRefName(refName: string, assemblyName: string): boolean;
+    } & {
+        afterAttach(): void;
+        removeAssembly(asm: import("@jbrowse/core/assemblyManager/assembly").Assembly): void;
+        addAssembly(configuration: any): void;
+    }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>, [undefined]>;
+}>, "internetAccounts"> & {
+    internetAccounts: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyType>;
+}, {
+    /**
+     * #volatile
+     */
+    error: unknown;
+    /**
+     * #volatile
+     */
+    adminMode: boolean;
+    /**
+     * #volatile
+     */
+    version: string;
+    /**
+     * #volatile
+     */
+    rpcManager: RpcManager;
+    /**
+     * #volatile
+     */
+    textSearchManager: TextSearchManager;
+} & {
+    /**
+     * #action
+     */
+    setSession(sessionSnapshot: SnapshotIn<SESSION>): void;
+    /**
+     * #action
+     * Load a session whose shape is only known at runtime — decoded from a
+     * URL, read back from storage, handed over by a non-TypeScript host.
+     *
+     * Separate from `setSession` because that one takes the compiler-checked
+     * snapshot type, which a value parsed out of JSON can never satisfy.
+     * The assertion below is the whole reason this exists: it is the single
+     * place the conversion happens, instead of every caller asserting at its
+     * own site. Nothing is unchecked at runtime — MST validates the snapshot
+     * as it applies it and throws on a mismatch, which is the check that
+     * actually matters for a value this app did not author.
+     */
+    restoreSession(sessionSnapshot: SessionSnapshot): void;
+    /**
+     * #action
+     */
+    renameCurrentSession(sessionName: string): void;
+    /**
+     * #action
+     */
+    setError(error: unknown): void;
+} & {
+    /**
+     * #getter
+     */
+    readonly jbrowse: import("@jbrowse/mobx-state-tree").ModelPropertiesDeclarationToProperties<{
+        /**
+         * #property
+         */
+        config: import("@jbrowse/mobx-state-tree").IModelType<{
+            configuration: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+                readonly rpc: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+                    readonly defaultDriver: {
+                        readonly type: "string";
+                        readonly description: "the RPC driver to run data fetching on: MainThreadRpcDriver or WebWorkerRpcDriver. Leave empty to use the default for this application";
+                        readonly defaultValue: "";
+                        readonly advanced: true;
+                    };
+                    readonly workerCount: {
+                        readonly type: "number";
+                        readonly description: "The number of workers to use. If 0 (the default) JBrowse will decide how many workers to use.";
+                        readonly defaultValue: 0;
+                        readonly advanced: true;
+                    };
+                }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+                readonly hierarchical: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+                    readonly sort: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+                        readonly trackNames: {
+                            readonly type: "boolean";
+                            readonly defaultValue: false;
+                        };
+                        readonly categories: {
+                            readonly type: "boolean";
+                            readonly defaultValue: false;
+                        };
+                    }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+                    readonly defaultFolderCategories: {
+                        readonly type: "stringArray";
+                        readonly description: "list of category names to display as folders by default";
+                        readonly defaultValue: readonly [];
+                    };
+                    readonly defaultCollapsed: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+                        readonly categoryNames: {
+                            readonly type: "stringArray";
+                            readonly defaultValue: readonly [];
+                        };
+                        readonly topLevelCategories: {
+                            readonly type: "boolean";
+                            readonly defaultValue: false;
+                        };
+                        readonly subCategories: {
+                            readonly type: "boolean";
+                            readonly defaultValue: false;
+                        };
+                    }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+                }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+                readonly preferences: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+                    readonly animationMode: {
+                        readonly model: import("@jbrowse/mobx-state-tree").ISimpleType<"disabled" | "enabled" | "system">;
+                        readonly type: "stringEnum";
+                        readonly defaultValue: "enabled";
+                    };
+                    readonly scrollZoom: {
+                        readonly type: "boolean";
+                        readonly defaultValue: false;
+                    };
+                    readonly numberGrouping: {
+                        readonly type: "boolean";
+                        readonly defaultValue: true;
+                    };
+                    readonly useWorkspaces: {
+                        readonly type: "boolean";
+                        readonly defaultValue: false;
+                    };
+                }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+                readonly formatDetails: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+                    readonly feature: {
+                        readonly type: "frozen";
+                        readonly description: "adds extra fields to the feature details";
+                        readonly defaultValue: {};
+                        readonly contextVariable: ["feature"];
+                    };
+                    readonly subfeatures: {
+                        readonly type: "frozen";
+                        readonly description: "adds extra fields to the subfeatures of a feature";
+                        readonly defaultValue: {};
+                        readonly contextVariable: ["feature"];
+                    };
+                    readonly depth: {
+                        readonly type: "maybeNumber";
+                        readonly description: "levels of subfeature the formatDetails.subfeatures callback runs on, default 2";
+                    };
+                    readonly maxDepth: {
+                        readonly type: "maybeNumber";
+                        readonly description: "hide subfeatures nested deeper than this, default no limit";
+                    };
+                }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+                readonly formatAbout: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+                    readonly config: {
+                        readonly type: "frozen";
+                        readonly description: "formats configuration object in about dialog";
+                        readonly defaultValue: {};
+                        readonly contextVariable: ["config"];
+                    };
+                    readonly hideUris: {
+                        readonly type: "boolean";
+                        readonly defaultValue: false;
+                    };
+                }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+                readonly theme: {
+                    readonly type: "frozen";
+                    readonly defaultValue: {};
+                };
+            }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+            assembly: import("@jbrowse/mobx-state-tree").IAnyType;
+            tracks: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyType>;
+            internetAccounts: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyType>;
+            connections: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyType>;
+            aggregateTextSearchAdapters: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyType>;
+            plugins: import("@jbrowse/mobx-state-tree").IType<any, any, any>;
+        }, {
+            readonly assemblies: any[];
+            readonly assemblyName: string;
+            readonly rpcManager: RpcManager;
+        }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>;
+        /**
+         * #property
+         */
+        session: SESSION;
+        /**
+         * #property
+         */
+        assemblyManager: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IModelType<{
+            assemblies: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IModelType<{
+                configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<import("@jbrowse/mobx-state-tree").IAnyType>>;
+            }, {
+                error: unknown;
+                loadingP: Promise<void> | undefined;
+                adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
+                volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+                refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+                canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
+                cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+                loadedGeneticCodes: Record<string, number> | undefined;
+                lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+                statusMessage: string | undefined;
+                statusProgress: number | undefined;
+                statusSource: string | undefined;
+                refNameMismatches: Map<string, import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch>;
+            } & {
+                getConf(arg: string): any;
+            } & {
+                readonly name: string;
+                readonly aliases: string[];
+                readonly displayName: string;
+                readonly refNameColors: string[];
+            } & {
+                readonly allAliases: string[];
+                hasName(name: string): boolean;
+            } & {
+                setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
+                setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
+            } & {
+                setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
+                    regions: import("@jbrowse/core/util").Region[];
+                    cytobands: import("@jbrowse/core/util").Feature[];
+                    geneticCodes: Record<string, number>;
+                }): void;
+                setError(e: unknown): void;
+                setLoadingP(p?: Promise<void>): void;
+                loadPre(): Promise<void>;
+            } & {
+                load(): Promise<void>;
+            } & {
+                afterAttach(): void;
+            } & {
+                readonly initialized: boolean;
+                readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+                readonly allRefNames: string[] | undefined;
+                readonly namesByCanonicalRefName: Map<string, string[]> | undefined;
+                readonly rpcManager: RpcManager;
+            } & {
+                readonly refNames: string[] | undefined;
+            } & {
+                readonly refNameToIndex: Map<string, number> | undefined;
+            } & {
+                getCanonicalRefName(refName: string): string | undefined;
+                getRefNameColor(refName: string): string | undefined;
+                getRegionForRefName(refName: string): import("@jbrowse/core/assemblyManager/assembly").BasicRegion | undefined;
+                getGeneticCodeId(refName: string): number;
+                getSeqAdapterRefName(canonicalRefName: string): string;
+            } & {
+                getCanonicalRefName2(refName: string): string;
+                isValidRefName(refName: string): boolean;
+            } & {
+                getAliasesForRefName(refName: string): string[];
+                getRefNameMapForAdapter(adapterConf: {
+                    [x: string]: unknown;
+                }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
+                getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
+            }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
+        }, {
+            unrecognizedReports: {
+                report(session: unknown, name: string, handlerCount: number, fire: () => unknown): void;
+                reportFor(session: unknown, name: string): {
+                    handled: boolean;
+                    claim?: Promise<void>;
+                } | undefined;
+            };
+        } & {
+            readonly assemblyNameMap: Record<string, import("@jbrowse/mobx-state-tree").ModelInstanceTypeProps<{
+                configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<import("@jbrowse/mobx-state-tree").IAnyType>>;
+            }> & {
+                error: unknown;
+                loadingP: Promise<void> | undefined;
+                adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
+                volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+                refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+                canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
+                cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+                loadedGeneticCodes: Record<string, number> | undefined;
+                lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+                statusMessage: string | undefined;
+                statusProgress: number | undefined;
+                statusSource: string | undefined;
+                refNameMismatches: Map<string, import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch>;
+            } & {
+                getConf(arg: string): any;
+            } & {
+                readonly name: string;
+                readonly aliases: string[];
+                readonly displayName: string;
+                readonly refNameColors: string[];
+            } & {
+                readonly allAliases: string[];
+                hasName(name: string): boolean;
+            } & {
+                setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
+                setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
+            } & {
+                setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
+                    regions: import("@jbrowse/core/util").Region[];
+                    cytobands: import("@jbrowse/core/util").Feature[];
+                    geneticCodes: Record<string, number>;
+                }): void;
+                setError(e: unknown): void;
+                setLoadingP(p?: Promise<void>): void;
+                loadPre(): Promise<void>;
+            } & {
+                load(): Promise<void>;
+            } & {
+                afterAttach(): void;
+            } & {
+                readonly initialized: boolean;
+                readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+                readonly allRefNames: string[] | undefined;
+                readonly namesByCanonicalRefName: Map<string, string[]> | undefined;
+                readonly rpcManager: RpcManager;
+            } & {
+                readonly refNames: string[] | undefined;
+            } & {
+                readonly refNameToIndex: Map<string, number> | undefined;
+            } & {
+                getCanonicalRefName(refName: string): string | undefined;
+                getRefNameColor(refName: string): string | undefined;
+                getRegionForRefName(refName: string): import("@jbrowse/core/assemblyManager/assembly").BasicRegion | undefined;
+                getGeneticCodeId(refName: string): number;
+                getSeqAdapterRefName(canonicalRefName: string): string;
+            } & {
+                getCanonicalRefName2(refName: string): string;
+                isValidRefName(refName: string): boolean;
+            } & {
+                getAliasesForRefName(refName: string): string[];
+                getRefNameMapForAdapter(adapterConf: {
+                    [x: string]: unknown;
+                }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
+                getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
+            } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IModelType<{
+                configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<import("@jbrowse/mobx-state-tree").IAnyType>>;
+            }, {
+                error: unknown;
+                loadingP: Promise<void> | undefined;
+                adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
+                volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+                refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+                canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
+                cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+                loadedGeneticCodes: Record<string, number> | undefined;
+                lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+                statusMessage: string | undefined;
+                statusProgress: number | undefined;
+                statusSource: string | undefined;
+                refNameMismatches: Map<string, import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch>;
+            } & {
+                getConf(arg: string): any;
+            } & {
+                readonly name: string;
+                readonly aliases: string[];
+                readonly displayName: string;
+                readonly refNameColors: string[];
+            } & {
+                readonly allAliases: string[];
+                hasName(name: string): boolean;
+            } & {
+                setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
+                setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
+            } & {
+                setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
+                    regions: import("@jbrowse/core/util").Region[];
+                    cytobands: import("@jbrowse/core/util").Feature[];
+                    geneticCodes: Record<string, number>;
+                }): void;
+                setError(e: unknown): void;
+                setLoadingP(p?: Promise<void>): void;
+                loadPre(): Promise<void>;
+            } & {
+                load(): Promise<void>;
+            } & {
+                afterAttach(): void;
+            } & {
+                readonly initialized: boolean;
+                readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+                readonly allRefNames: string[] | undefined;
+                readonly namesByCanonicalRefName: Map<string, string[]> | undefined;
+                readonly rpcManager: RpcManager;
+            } & {
+                readonly refNames: string[] | undefined;
+            } & {
+                readonly refNameToIndex: Map<string, number> | undefined;
+            } & {
+                getCanonicalRefName(refName: string): string | undefined;
+                getRefNameColor(refName: string): string | undefined;
+                getRegionForRefName(refName: string): import("@jbrowse/core/assemblyManager/assembly").BasicRegion | undefined;
+                getGeneticCodeId(refName: string): number;
+                getSeqAdapterRefName(canonicalRefName: string): string;
+            } & {
+                getCanonicalRefName2(refName: string): string;
+                isValidRefName(refName: string): boolean;
+            } & {
+                getAliasesForRefName(refName: string): string[];
+                getRefNameMapForAdapter(adapterConf: {
+                    [x: string]: unknown;
+                }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
+                getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
+            }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>>;
+        } & {
+            getCanonicalAssemblyName(asmName: string): string | undefined;
+            getDisplayName(asmName: string): string;
+            get(asmName: string): (import("@jbrowse/mobx-state-tree").ModelInstanceTypeProps<{
+                configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<import("@jbrowse/mobx-state-tree").IAnyType>>;
+            }> & {
+                error: unknown;
+                loadingP: Promise<void> | undefined;
+                adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
+                volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+                refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+                canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
+                cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+                loadedGeneticCodes: Record<string, number> | undefined;
+                lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+                statusMessage: string | undefined;
+                statusProgress: number | undefined;
+                statusSource: string | undefined;
+                refNameMismatches: Map<string, import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch>;
+            } & {
+                getConf(arg: string): any;
+            } & {
+                readonly name: string;
+                readonly aliases: string[];
+                readonly displayName: string;
+                readonly refNameColors: string[];
+            } & {
+                readonly allAliases: string[];
+                hasName(name: string): boolean;
+            } & {
+                setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
+                setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
+            } & {
+                setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
+                    regions: import("@jbrowse/core/util").Region[];
+                    cytobands: import("@jbrowse/core/util").Feature[];
+                    geneticCodes: Record<string, number>;
+                }): void;
+                setError(e: unknown): void;
+                setLoadingP(p?: Promise<void>): void;
+                loadPre(): Promise<void>;
+            } & {
+                load(): Promise<void>;
+            } & {
+                afterAttach(): void;
+            } & {
+                readonly initialized: boolean;
+                readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+                readonly allRefNames: string[] | undefined;
+                readonly namesByCanonicalRefName: Map<string, string[]> | undefined;
+                readonly rpcManager: RpcManager;
+            } & {
+                readonly refNames: string[] | undefined;
+            } & {
+                readonly refNameToIndex: Map<string, number> | undefined;
+            } & {
+                getCanonicalRefName(refName: string): string | undefined;
+                getRefNameColor(refName: string): string | undefined;
+                getRegionForRefName(refName: string): import("@jbrowse/core/assemblyManager/assembly").BasicRegion | undefined;
+                getGeneticCodeId(refName: string): number;
+                getSeqAdapterRefName(canonicalRefName: string): string;
+            } & {
+                getCanonicalRefName2(refName: string): string;
+                isValidRefName(refName: string): boolean;
+            } & {
+                getAliasesForRefName(refName: string): string[];
+                getRefNameMapForAdapter(adapterConf: {
+                    [x: string]: unknown;
+                }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
+                getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
+            } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IModelType<{
+                configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<import("@jbrowse/mobx-state-tree").IAnyType>>;
+            }, {
+                error: unknown;
+                loadingP: Promise<void> | undefined;
+                adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
+                volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+                refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+                canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
+                cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+                loadedGeneticCodes: Record<string, number> | undefined;
+                lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+                statusMessage: string | undefined;
+                statusProgress: number | undefined;
+                statusSource: string | undefined;
+                refNameMismatches: Map<string, import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch>;
+            } & {
+                getConf(arg: string): any;
+            } & {
+                readonly name: string;
+                readonly aliases: string[];
+                readonly displayName: string;
+                readonly refNameColors: string[];
+            } & {
+                readonly allAliases: string[];
+                hasName(name: string): boolean;
+            } & {
+                setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
+                setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
+            } & {
+                setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
+                    regions: import("@jbrowse/core/util").Region[];
+                    cytobands: import("@jbrowse/core/util").Feature[];
+                    geneticCodes: Record<string, number>;
+                }): void;
+                setError(e: unknown): void;
+                setLoadingP(p?: Promise<void>): void;
+                loadPre(): Promise<void>;
+            } & {
+                load(): Promise<void>;
+            } & {
+                afterAttach(): void;
+            } & {
+                readonly initialized: boolean;
+                readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+                readonly allRefNames: string[] | undefined;
+                readonly namesByCanonicalRefName: Map<string, string[]> | undefined;
+                readonly rpcManager: RpcManager;
+            } & {
+                readonly refNames: string[] | undefined;
+            } & {
+                readonly refNameToIndex: Map<string, number> | undefined;
+            } & {
+                getCanonicalRefName(refName: string): string | undefined;
+                getRefNameColor(refName: string): string | undefined;
+                getRegionForRefName(refName: string): import("@jbrowse/core/assemblyManager/assembly").BasicRegion | undefined;
+                getGeneticCodeId(refName: string): number;
+                getSeqAdapterRefName(canonicalRefName: string): string;
+            } & {
+                getCanonicalRefName2(refName: string): string;
+                isValidRefName(refName: string): boolean;
+            } & {
+                getAliasesForRefName(refName: string): string[];
+                getRefNameMapForAdapter(adapterConf: {
+                    [x: string]: unknown;
+                }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
+                getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
+            }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>) | undefined;
+            has(asmName: string): boolean;
+            loadingAssembly(asmNames: string[]): (import("@jbrowse/mobx-state-tree").ModelInstanceTypeProps<{
+                configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<import("@jbrowse/mobx-state-tree").IAnyType>>;
+            }> & {
+                error: unknown;
+                loadingP: Promise<void> | undefined;
+                adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
+                volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+                refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+                canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
+                cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+                loadedGeneticCodes: Record<string, number> | undefined;
+                lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+                statusMessage: string | undefined;
+                statusProgress: number | undefined;
+                statusSource: string | undefined;
+                refNameMismatches: Map<string, import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch>;
+            } & {
+                getConf(arg: string): any;
+            } & {
+                readonly name: string;
+                readonly aliases: string[];
+                readonly displayName: string;
+                readonly refNameColors: string[];
+            } & {
+                readonly allAliases: string[];
+                hasName(name: string): boolean;
+            } & {
+                setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
+                setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
+            } & {
+                setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
+                    regions: import("@jbrowse/core/util").Region[];
+                    cytobands: import("@jbrowse/core/util").Feature[];
+                    geneticCodes: Record<string, number>;
+                }): void;
+                setError(e: unknown): void;
+                setLoadingP(p?: Promise<void>): void;
+                loadPre(): Promise<void>;
+            } & {
+                load(): Promise<void>;
+            } & {
+                afterAttach(): void;
+            } & {
+                readonly initialized: boolean;
+                readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+                readonly allRefNames: string[] | undefined;
+                readonly namesByCanonicalRefName: Map<string, string[]> | undefined;
+                readonly rpcManager: RpcManager;
+            } & {
+                readonly refNames: string[] | undefined;
+            } & {
+                readonly refNameToIndex: Map<string, number> | undefined;
+            } & {
+                getCanonicalRefName(refName: string): string | undefined;
+                getRefNameColor(refName: string): string | undefined;
+                getRegionForRefName(refName: string): import("@jbrowse/core/assemblyManager/assembly").BasicRegion | undefined;
+                getGeneticCodeId(refName: string): number;
+                getSeqAdapterRefName(canonicalRefName: string): string;
+            } & {
+                getCanonicalRefName2(refName: string): string;
+                isValidRefName(refName: string): boolean;
+            } & {
+                getAliasesForRefName(refName: string): string[];
+                getRefNameMapForAdapter(adapterConf: {
+                    [x: string]: unknown;
+                }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
+                getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
+            } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IModelType<{
+                configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<import("@jbrowse/mobx-state-tree").IAnyType>>;
+            }, {
+                error: unknown;
+                loadingP: Promise<void> | undefined;
+                adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
+                volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+                refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+                canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
+                cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+                loadedGeneticCodes: Record<string, number> | undefined;
+                lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+                statusMessage: string | undefined;
+                statusProgress: number | undefined;
+                statusSource: string | undefined;
+                refNameMismatches: Map<string, import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch>;
+            } & {
+                getConf(arg: string): any;
+            } & {
+                readonly name: string;
+                readonly aliases: string[];
+                readonly displayName: string;
+                readonly refNameColors: string[];
+            } & {
+                readonly allAliases: string[];
+                hasName(name: string): boolean;
+            } & {
+                setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
+                setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
+            } & {
+                setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
+                    regions: import("@jbrowse/core/util").Region[];
+                    cytobands: import("@jbrowse/core/util").Feature[];
+                    geneticCodes: Record<string, number>;
+                }): void;
+                setError(e: unknown): void;
+                setLoadingP(p?: Promise<void>): void;
+                loadPre(): Promise<void>;
+            } & {
+                load(): Promise<void>;
+            } & {
+                afterAttach(): void;
+            } & {
+                readonly initialized: boolean;
+                readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+                readonly allRefNames: string[] | undefined;
+                readonly namesByCanonicalRefName: Map<string, string[]> | undefined;
+                readonly rpcManager: RpcManager;
+            } & {
+                readonly refNames: string[] | undefined;
+            } & {
+                readonly refNameToIndex: Map<string, number> | undefined;
+            } & {
+                getCanonicalRefName(refName: string): string | undefined;
+                getRefNameColor(refName: string): string | undefined;
+                getRegionForRefName(refName: string): import("@jbrowse/core/assemblyManager/assembly").BasicRegion | undefined;
+                getGeneticCodeId(refName: string): number;
+                getSeqAdapterRefName(canonicalRefName: string): string;
+            } & {
+                getCanonicalRefName2(refName: string): string;
+                isValidRefName(refName: string): boolean;
+            } & {
+                getAliasesForRefName(refName: string): string[];
+                getRefNameMapForAdapter(adapterConf: {
+                    [x: string]: unknown;
+                }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
+                getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
+            }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>) | undefined;
+            readonly assemblyNamesList: string[];
+            readonly configuredAssemblyNames: Set<string>;
+            readonly assemblyList: (import("@jbrowse/mobx-state-tree").ModelInstanceTypeProps<Record<string, any>> & {
+                setSubschema(slotName: string, data: Record<string, unknown>): any;
+                setSlot(slotName: string, value: unknown): void;
+            } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>)[];
+            readonly rpcManager: RpcManager;
+        } & {
+            settleAssemblyResolution(assemblyName: string): Promise<void>;
+        } & {
+            waitForAssembly(assemblyName: string): Promise<(import("@jbrowse/mobx-state-tree").ModelInstanceTypeProps<{
+                configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<import("@jbrowse/mobx-state-tree").IAnyType>>;
+            }> & {
+                error: unknown;
+                loadingP: Promise<void> | undefined;
+                adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
+                volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+                refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+                canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
+                cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+                loadedGeneticCodes: Record<string, number> | undefined;
+                lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+                statusMessage: string | undefined;
+                statusProgress: number | undefined;
+                statusSource: string | undefined;
+                refNameMismatches: Map<string, import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch>;
+            } & {
+                getConf(arg: string): any;
+            } & {
+                readonly name: string;
+                readonly aliases: string[];
+                readonly displayName: string;
+                readonly refNameColors: string[];
+            } & {
+                readonly allAliases: string[];
+                hasName(name: string): boolean;
+            } & {
+                setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
+                setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
+            } & {
+                setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
+                    regions: import("@jbrowse/core/util").Region[];
+                    cytobands: import("@jbrowse/core/util").Feature[];
+                    geneticCodes: Record<string, number>;
+                }): void;
+                setError(e: unknown): void;
+                setLoadingP(p?: Promise<void>): void;
+                loadPre(): Promise<void>;
+            } & {
+                load(): Promise<void>;
+            } & {
+                afterAttach(): void;
+            } & {
+                readonly initialized: boolean;
+                readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+                readonly allRefNames: string[] | undefined;
+                readonly namesByCanonicalRefName: Map<string, string[]> | undefined;
+                readonly rpcManager: RpcManager;
+            } & {
+                readonly refNames: string[] | undefined;
+            } & {
+                readonly refNameToIndex: Map<string, number> | undefined;
+            } & {
+                getCanonicalRefName(refName: string): string | undefined;
+                getRefNameColor(refName: string): string | undefined;
+                getRegionForRefName(refName: string): import("@jbrowse/core/assemblyManager/assembly").BasicRegion | undefined;
+                getGeneticCodeId(refName: string): number;
+                getSeqAdapterRefName(canonicalRefName: string): string;
+            } & {
+                getCanonicalRefName2(refName: string): string;
+                isValidRefName(refName: string): boolean;
+            } & {
+                getAliasesForRefName(refName: string): string[];
+                getRefNameMapForAdapter(adapterConf: {
+                    [x: string]: unknown;
+                }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
+                getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
+            } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IModelType<{
+                configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<import("@jbrowse/mobx-state-tree").IAnyType>>;
+            }, {
+                error: unknown;
+                loadingP: Promise<void> | undefined;
+                adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
+                volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+                refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+                canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
+                cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+                loadedGeneticCodes: Record<string, number> | undefined;
+                lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+                statusMessage: string | undefined;
+                statusProgress: number | undefined;
+                statusSource: string | undefined;
+                refNameMismatches: Map<string, import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch>;
+            } & {
+                getConf(arg: string): any;
+            } & {
+                readonly name: string;
+                readonly aliases: string[];
+                readonly displayName: string;
+                readonly refNameColors: string[];
+            } & {
+                readonly allAliases: string[];
+                hasName(name: string): boolean;
+            } & {
+                setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
+                setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
+            } & {
+                setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
+                    regions: import("@jbrowse/core/util").Region[];
+                    cytobands: import("@jbrowse/core/util").Feature[];
+                    geneticCodes: Record<string, number>;
+                }): void;
+                setError(e: unknown): void;
+                setLoadingP(p?: Promise<void>): void;
+                loadPre(): Promise<void>;
+            } & {
+                load(): Promise<void>;
+            } & {
+                afterAttach(): void;
+            } & {
+                readonly initialized: boolean;
+                readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+                readonly allRefNames: string[] | undefined;
+                readonly namesByCanonicalRefName: Map<string, string[]> | undefined;
+                readonly rpcManager: RpcManager;
+            } & {
+                readonly refNames: string[] | undefined;
+            } & {
+                readonly refNameToIndex: Map<string, number> | undefined;
+            } & {
+                getCanonicalRefName(refName: string): string | undefined;
+                getRefNameColor(refName: string): string | undefined;
+                getRegionForRefName(refName: string): import("@jbrowse/core/assemblyManager/assembly").BasicRegion | undefined;
+                getGeneticCodeId(refName: string): number;
+                getSeqAdapterRefName(canonicalRefName: string): string;
+            } & {
+                getCanonicalRefName2(refName: string): string;
+                isValidRefName(refName: string): boolean;
+            } & {
+                getAliasesForRefName(refName: string): string[];
+                getRefNameMapForAdapter(adapterConf: {
+                    [x: string]: unknown;
+                }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
+                getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
+            }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>) | undefined>;
+            requireAssembly(assemblyName: string): Promise<import("@jbrowse/mobx-state-tree").ModelInstanceTypeProps<{
+                configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<import("@jbrowse/mobx-state-tree").IAnyType>>;
+            }> & {
+                error: unknown;
+                loadingP: Promise<void> | undefined;
+                adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
+                volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+                refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+                canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
+                cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+                loadedGeneticCodes: Record<string, number> | undefined;
+                lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+                statusMessage: string | undefined;
+                statusProgress: number | undefined;
+                statusSource: string | undefined;
+                refNameMismatches: Map<string, import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch>;
+            } & {
+                getConf(arg: string): any;
+            } & {
+                readonly name: string;
+                readonly aliases: string[];
+                readonly displayName: string;
+                readonly refNameColors: string[];
+            } & {
+                readonly allAliases: string[];
+                hasName(name: string): boolean;
+            } & {
+                setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
+                setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
+            } & {
+                setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
+                    regions: import("@jbrowse/core/util").Region[];
+                    cytobands: import("@jbrowse/core/util").Feature[];
+                    geneticCodes: Record<string, number>;
+                }): void;
+                setError(e: unknown): void;
+                setLoadingP(p?: Promise<void>): void;
+                loadPre(): Promise<void>;
+            } & {
+                load(): Promise<void>;
+            } & {
+                afterAttach(): void;
+            } & {
+                readonly initialized: boolean;
+                readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+                readonly allRefNames: string[] | undefined;
+                readonly namesByCanonicalRefName: Map<string, string[]> | undefined;
+                readonly rpcManager: RpcManager;
+            } & {
+                readonly refNames: string[] | undefined;
+            } & {
+                readonly refNameToIndex: Map<string, number> | undefined;
+            } & {
+                getCanonicalRefName(refName: string): string | undefined;
+                getRefNameColor(refName: string): string | undefined;
+                getRegionForRefName(refName: string): import("@jbrowse/core/assemblyManager/assembly").BasicRegion | undefined;
+                getGeneticCodeId(refName: string): number;
+                getSeqAdapterRefName(canonicalRefName: string): string;
+            } & {
+                getCanonicalRefName2(refName: string): string;
+                isValidRefName(refName: string): boolean;
+            } & {
+                getAliasesForRefName(refName: string): string[];
+                getRefNameMapForAdapter(adapterConf: {
+                    [x: string]: unknown;
+                }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
+                getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
+            } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IModelType<{
+                configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<import("@jbrowse/mobx-state-tree").IAnyType>>;
+            }, {
+                error: unknown;
+                loadingP: Promise<void> | undefined;
+                adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
+                volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+                refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+                canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
+                cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+                loadedGeneticCodes: Record<string, number> | undefined;
+                lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
+                statusMessage: string | undefined;
+                statusProgress: number | undefined;
+                statusSource: string | undefined;
+                refNameMismatches: Map<string, import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch>;
+            } & {
+                getConf(arg: string): any;
+            } & {
+                readonly name: string;
+                readonly aliases: string[];
+                readonly displayName: string;
+                readonly refNameColors: string[];
+            } & {
+                readonly allAliases: string[];
+                hasName(name: string): boolean;
+            } & {
+                setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
+                setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
+            } & {
+                setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
+                    regions: import("@jbrowse/core/util").Region[];
+                    cytobands: import("@jbrowse/core/util").Feature[];
+                    geneticCodes: Record<string, number>;
+                }): void;
+                setError(e: unknown): void;
+                setLoadingP(p?: Promise<void>): void;
+                loadPre(): Promise<void>;
+            } & {
+                load(): Promise<void>;
+            } & {
+                afterAttach(): void;
+            } & {
+                readonly initialized: boolean;
+                readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+                readonly allRefNames: string[] | undefined;
+                readonly namesByCanonicalRefName: Map<string, string[]> | undefined;
+                readonly rpcManager: RpcManager;
+            } & {
+                readonly refNames: string[] | undefined;
+            } & {
+                readonly refNameToIndex: Map<string, number> | undefined;
+            } & {
+                getCanonicalRefName(refName: string): string | undefined;
+                getRefNameColor(refName: string): string | undefined;
+                getRegionForRefName(refName: string): import("@jbrowse/core/assemblyManager/assembly").BasicRegion | undefined;
+                getGeneticCodeId(refName: string): number;
+                getSeqAdapterRefName(canonicalRefName: string): string;
+            } & {
+                getCanonicalRefName2(refName: string): string;
+                isValidRefName(refName: string): boolean;
+            } & {
+                getAliasesForRefName(refName: string): string[];
+                getRefNameMapForAdapter(adapterConf: {
+                    [x: string]: unknown;
+                }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
+                getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
+            }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>>;
+            getRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, assemblyName: string | undefined, opts: import("@jbrowse/core/assemblyManager").AssemblyBaseOpts): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
+            isValidRefName(refName: string, assemblyName: string): boolean;
+        } & {
+            afterAttach(): void;
+            removeAssembly(asm: import("@jbrowse/core/assemblyManager/assembly").Assembly): void;
+            addAssembly(configuration: any): void;
+        }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>, [undefined]>;
+    }>["config"]["Type"];
+    /**
+     * #getter
+     */
+    readonly pluginManager: PluginManager;
+} & {
+    initializeInternetAccount(internetAccountConfig: import("@jbrowse/core/configuration").AnyConfigurationModel, initialSnapshot?: object): any;
+    createEphemeralInternetAccount(internetAccountId: string, initialSnapshot: Record<string, unknown>, url: string): any;
+} & {
+    findAppropriateInternetAccount(location: import("@jbrowse/core/util").UriLocation): any;
+} & {
+    afterCreate(): void;
+}, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>;
+export {};