@jbrowse/react-app2 3.2.0

package/esm/createViewState.d.ts

@@ -0,0 +1,1769 @@
+import type { PluginConstructor } from '@jbrowse/core/Plugin';
+import type { BaseAssemblyConfigSchema } from '@jbrowse/core/assemblyManager';
+import type { IJsonPatch, SnapshotIn } from 'mobx-state-tree';
+interface TextSearchAdapterConfig {
+    textSearchAdapterId: string;
+    [key: string]: unknown;
+}
+interface InternetAccountConfig {
+    internetAccountId: string;
+    [key: string]: unknown;
+}
+interface TrackConfig {
+    trackId: string;
+    [key: string]: unknown;
+}
+interface SessionSnapshot {
+    name: string;
+    [key: string]: unknown;
+}
+interface Config {
+    assemblies: SnapshotIn<BaseAssemblyConfigSchema>[];
+    tracks: TrackConfig[];
+    internetAccounts?: InternetAccountConfig[];
+    aggregateTextSearchAdapters?: TextSearchAdapterConfig[];
+    configuration?: Record<string, unknown>;
+    defaultSession?: SessionSnapshot;
+}
+export default function createViewState(opts: {
+    config: Config;
+    plugins?: PluginConstructor[];
+    onChange?: (patch: IJsonPatch, reversePatch: IJsonPatch) => void;
+    makeWorkerInstance?: () => Worker;
+}): {
+    jbrowse: any;
+    session: any;
+    sessionPath: string;
+    assemblyManager: {
+        assemblies: import("mobx-state-tree").IMSTArray<import("mobx-state-tree").IModelType<{
+            configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
+        }, {
+            error: unknown;
+            loadingP: Promise<void> | undefined;
+            volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            refNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            lowerCaseRefNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+        } & {
+            getConf(arg: string): any;
+        } & {
+            readonly initialized: boolean;
+            readonly name: string;
+            readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            readonly aliases: string[];
+            readonly displayName: string | undefined;
+            hasName(name: string): boolean;
+            readonly allAliases: string[];
+            readonly allRefNames: string[] | undefined;
+            readonly lowerCaseRefNames: string[] | undefined;
+            readonly allRefNamesWithLowerCase: string[] | undefined;
+            readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
+            readonly refNameColors: string[];
+        } & {
+            readonly refNames: string[] | undefined;
+        } & {
+            getCanonicalRefName(refName: string): string | undefined;
+            getRefNameColor(refName: string): string | undefined;
+            isValidRefName(refName: string): boolean;
+        } & {
+            setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, cytobands, }: {
+                regions: import("@jbrowse/core/util").Region[];
+                refNameAliases: {
+                    [x: string]: string;
+                };
+                lowerCaseRefNameAliases: {
+                    [x: string]: string;
+                };
+                cytobands: import("@jbrowse/core/util").Feature[];
+            }): void;
+            setError(e: unknown): void;
+            setRegions(regions: import("@jbrowse/core/util").Region[]): void;
+            setRefNameAliases(aliases: {
+                [x: string]: string;
+            }, lowerCaseAliases: {
+                [x: string]: string;
+            }): void;
+            setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
+            setLoadingP(p?: Promise<void>): void;
+            load(): Promise<void>;
+            loadPre(): Promise<void>;
+        } & {
+            getAdapterMapEntry(adapterConf: {
+                [x: string]: unknown;
+            }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
+            getRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+            getReverseRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+        }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>> & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IArrayType<import("mobx-state-tree").IModelType<{
+            configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
+        }, {
+            error: unknown;
+            loadingP: Promise<void> | undefined;
+            volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            refNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            lowerCaseRefNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+        } & {
+            getConf(arg: string): any;
+        } & {
+            readonly initialized: boolean;
+            readonly name: string;
+            readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            readonly aliases: string[];
+            readonly displayName: string | undefined;
+            hasName(name: string): boolean;
+            readonly allAliases: string[];
+            readonly allRefNames: string[] | undefined;
+            readonly lowerCaseRefNames: string[] | undefined;
+            readonly allRefNamesWithLowerCase: string[] | undefined;
+            readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
+            readonly refNameColors: string[];
+        } & {
+            readonly refNames: string[] | undefined;
+        } & {
+            getCanonicalRefName(refName: string): string | undefined;
+            getRefNameColor(refName: string): string | undefined;
+            isValidRefName(refName: string): boolean;
+        } & {
+            setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, cytobands, }: {
+                regions: import("@jbrowse/core/util").Region[];
+                refNameAliases: {
+                    [x: string]: string;
+                };
+                lowerCaseRefNameAliases: {
+                    [x: string]: string;
+                };
+                cytobands: import("@jbrowse/core/util").Feature[];
+            }): void;
+            setError(e: unknown): void;
+            setRegions(regions: import("@jbrowse/core/util").Region[]): void;
+            setRefNameAliases(aliases: {
+                [x: string]: string;
+            }, lowerCaseAliases: {
+                [x: string]: string;
+            }): void;
+            setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
+            setLoadingP(p?: Promise<void>): void;
+            load(): Promise<void>;
+            loadPre(): Promise<void>;
+        } & {
+            getAdapterMapEntry(adapterConf: {
+                [x: string]: unknown;
+            }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
+            getRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+            getReverseRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+        }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>>;
+    } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
+        readonly assemblyNameMap: Record<string, {
+            configuration: any;
+        } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
+            error: unknown;
+            loadingP: Promise<void> | undefined;
+            volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            refNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            lowerCaseRefNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+        } & {
+            getConf(arg: string): any;
+        } & {
+            readonly initialized: boolean;
+            readonly name: string;
+            readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            readonly aliases: string[];
+            readonly displayName: string | undefined;
+            hasName(name: string): boolean;
+            readonly allAliases: string[];
+            readonly allRefNames: string[] | undefined;
+            readonly lowerCaseRefNames: string[] | undefined;
+            readonly allRefNamesWithLowerCase: string[] | undefined;
+            readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
+            readonly refNameColors: string[];
+        } & {
+            readonly refNames: string[] | undefined;
+        } & {
+            getCanonicalRefName(refName: string): string | undefined;
+            getRefNameColor(refName: string): string | undefined;
+            isValidRefName(refName: string): boolean;
+        } & {
+            setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, cytobands, }: {
+                regions: import("@jbrowse/core/util").Region[];
+                refNameAliases: {
+                    [x: string]: string;
+                };
+                lowerCaseRefNameAliases: {
+                    [x: string]: string;
+                };
+                cytobands: import("@jbrowse/core/util").Feature[];
+            }): void;
+            setError(e: unknown): void;
+            setRegions(regions: import("@jbrowse/core/util").Region[]): void;
+            setRefNameAliases(aliases: {
+                [x: string]: string;
+            }, lowerCaseAliases: {
+                [x: string]: string;
+            }): void;
+            setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
+            setLoadingP(p?: Promise<void>): void;
+            load(): Promise<void>;
+            loadPre(): Promise<void>;
+        } & {
+            getAdapterMapEntry(adapterConf: {
+                [x: string]: unknown;
+            }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
+            getRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+            getReverseRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+        } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
+            configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
+        }, {
+            error: unknown;
+            loadingP: Promise<void> | undefined;
+            volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            refNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            lowerCaseRefNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+        } & {
+            getConf(arg: string): any;
+        } & {
+            readonly initialized: boolean;
+            readonly name: string;
+            readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            readonly aliases: string[];
+            readonly displayName: string | undefined;
+            hasName(name: string): boolean;
+            readonly allAliases: string[];
+            readonly allRefNames: string[] | undefined;
+            readonly lowerCaseRefNames: string[] | undefined;
+            readonly allRefNamesWithLowerCase: string[] | undefined;
+            readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
+            readonly refNameColors: string[];
+        } & {
+            readonly refNames: string[] | undefined;
+        } & {
+            getCanonicalRefName(refName: string): string | undefined;
+            getRefNameColor(refName: string): string | undefined;
+            isValidRefName(refName: string): boolean;
+        } & {
+            setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, cytobands, }: {
+                regions: import("@jbrowse/core/util").Region[];
+                refNameAliases: {
+                    [x: string]: string;
+                };
+                lowerCaseRefNameAliases: {
+                    [x: string]: string;
+                };
+                cytobands: import("@jbrowse/core/util").Feature[];
+            }): void;
+            setError(e: unknown): void;
+            setRegions(regions: import("@jbrowse/core/util").Region[]): void;
+            setRefNameAliases(aliases: {
+                [x: string]: string;
+            }, lowerCaseAliases: {
+                [x: string]: string;
+            }): void;
+            setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
+            setLoadingP(p?: Promise<void>): void;
+            load(): Promise<void>;
+            loadPre(): Promise<void>;
+        } & {
+            getAdapterMapEntry(adapterConf: {
+                [x: string]: unknown;
+            }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
+            getRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+            getReverseRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+        }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>>;
+    } & {
+        get(asmName: string): ({
+            configuration: any;
+        } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
+            error: unknown;
+            loadingP: Promise<void> | undefined;
+            volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            refNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            lowerCaseRefNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+        } & {
+            getConf(arg: string): any;
+        } & {
+            readonly initialized: boolean;
+            readonly name: string;
+            readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            readonly aliases: string[];
+            readonly displayName: string | undefined;
+            hasName(name: string): boolean;
+            readonly allAliases: string[];
+            readonly allRefNames: string[] | undefined;
+            readonly lowerCaseRefNames: string[] | undefined;
+            readonly allRefNamesWithLowerCase: string[] | undefined;
+            readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
+            readonly refNameColors: string[];
+        } & {
+            readonly refNames: string[] | undefined;
+        } & {
+            getCanonicalRefName(refName: string): string | undefined;
+            getRefNameColor(refName: string): string | undefined;
+            isValidRefName(refName: string): boolean;
+        } & {
+            setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, cytobands, }: {
+                regions: import("@jbrowse/core/util").Region[];
+                refNameAliases: {
+                    [x: string]: string;
+                };
+                lowerCaseRefNameAliases: {
+                    [x: string]: string;
+                };
+                cytobands: import("@jbrowse/core/util").Feature[];
+            }): void;
+            setError(e: unknown): void;
+            setRegions(regions: import("@jbrowse/core/util").Region[]): void;
+            setRefNameAliases(aliases: {
+                [x: string]: string;
+            }, lowerCaseAliases: {
+                [x: string]: string;
+            }): void;
+            setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
+            setLoadingP(p?: Promise<void>): void;
+            load(): Promise<void>;
+            loadPre(): Promise<void>;
+        } & {
+            getAdapterMapEntry(adapterConf: {
+                [x: string]: unknown;
+            }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
+            getRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+            getReverseRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+        } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
+            configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
+        }, {
+            error: unknown;
+            loadingP: Promise<void> | undefined;
+            volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            refNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            lowerCaseRefNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+        } & {
+            getConf(arg: string): any;
+        } & {
+            readonly initialized: boolean;
+            readonly name: string;
+            readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            readonly aliases: string[];
+            readonly displayName: string | undefined;
+            hasName(name: string): boolean;
+            readonly allAliases: string[];
+            readonly allRefNames: string[] | undefined;
+            readonly lowerCaseRefNames: string[] | undefined;
+            readonly allRefNamesWithLowerCase: string[] | undefined;
+            readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
+            readonly refNameColors: string[];
+        } & {
+            readonly refNames: string[] | undefined;
+        } & {
+            getCanonicalRefName(refName: string): string | undefined;
+            getRefNameColor(refName: string): string | undefined;
+            isValidRefName(refName: string): boolean;
+        } & {
+            setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, cytobands, }: {
+                regions: import("@jbrowse/core/util").Region[];
+                refNameAliases: {
+                    [x: string]: string;
+                };
+                lowerCaseRefNameAliases: {
+                    [x: string]: string;
+                };
+                cytobands: import("@jbrowse/core/util").Feature[];
+            }): void;
+            setError(e: unknown): void;
+            setRegions(regions: import("@jbrowse/core/util").Region[]): void;
+            setRefNameAliases(aliases: {
+                [x: string]: string;
+            }, lowerCaseAliases: {
+                [x: string]: string;
+            }): void;
+            setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
+            setLoadingP(p?: Promise<void>): void;
+            load(): Promise<void>;
+            loadPre(): Promise<void>;
+        } & {
+            getAdapterMapEntry(adapterConf: {
+                [x: string]: unknown;
+            }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
+            getRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+            getReverseRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+        }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>) | undefined;
+        readonly assemblyNamesList: any[];
+        readonly assemblyList: import("@jbrowse/core/configuration").AnyConfigurationModel[];
+        readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
+    } & {
+        waitForAssembly(assemblyName: string): Promise<({
+            configuration: any;
+        } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
+            error: unknown;
+            loadingP: Promise<void> | undefined;
+            volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            refNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            lowerCaseRefNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+        } & {
+            getConf(arg: string): any;
+        } & {
+            readonly initialized: boolean;
+            readonly name: string;
+            readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            readonly aliases: string[];
+            readonly displayName: string | undefined;
+            hasName(name: string): boolean;
+            readonly allAliases: string[];
+            readonly allRefNames: string[] | undefined;
+            readonly lowerCaseRefNames: string[] | undefined;
+            readonly allRefNamesWithLowerCase: string[] | undefined;
+            readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
+            readonly refNameColors: string[];
+        } & {
+            readonly refNames: string[] | undefined;
+        } & {
+            getCanonicalRefName(refName: string): string | undefined;
+            getRefNameColor(refName: string): string | undefined;
+            isValidRefName(refName: string): boolean;
+        } & {
+            setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, cytobands, }: {
+                regions: import("@jbrowse/core/util").Region[];
+                refNameAliases: {
+                    [x: string]: string;
+                };
+                lowerCaseRefNameAliases: {
+                    [x: string]: string;
+                };
+                cytobands: import("@jbrowse/core/util").Feature[];
+            }): void;
+            setError(e: unknown): void;
+            setRegions(regions: import("@jbrowse/core/util").Region[]): void;
+            setRefNameAliases(aliases: {
+                [x: string]: string;
+            }, lowerCaseAliases: {
+                [x: string]: string;
+            }): void;
+            setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
+            setLoadingP(p?: Promise<void>): void;
+            load(): Promise<void>;
+            loadPre(): Promise<void>;
+        } & {
+            getAdapterMapEntry(adapterConf: {
+                [x: string]: unknown;
+            }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
+            getRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+            getReverseRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+        } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
+            configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
+        }, {
+            error: unknown;
+            loadingP: Promise<void> | undefined;
+            volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            refNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            lowerCaseRefNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+        } & {
+            getConf(arg: string): any;
+        } & {
+            readonly initialized: boolean;
+            readonly name: string;
+            readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            readonly aliases: string[];
+            readonly displayName: string | undefined;
+            hasName(name: string): boolean;
+            readonly allAliases: string[];
+            readonly allRefNames: string[] | undefined;
+            readonly lowerCaseRefNames: string[] | undefined;
+            readonly allRefNamesWithLowerCase: string[] | undefined;
+            readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
+            readonly refNameColors: string[];
+        } & {
+            readonly refNames: string[] | undefined;
+        } & {
+            getCanonicalRefName(refName: string): string | undefined;
+            getRefNameColor(refName: string): string | undefined;
+            isValidRefName(refName: string): boolean;
+        } & {
+            setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, cytobands, }: {
+                regions: import("@jbrowse/core/util").Region[];
+                refNameAliases: {
+                    [x: string]: string;
+                };
+                lowerCaseRefNameAliases: {
+                    [x: string]: string;
+                };
+                cytobands: import("@jbrowse/core/util").Feature[];
+            }): void;
+            setError(e: unknown): void;
+            setRegions(regions: import("@jbrowse/core/util").Region[]): void;
+            setRefNameAliases(aliases: {
+                [x: string]: string;
+            }, lowerCaseAliases: {
+                [x: string]: string;
+            }): void;
+            setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
+            setLoadingP(p?: Promise<void>): void;
+            load(): Promise<void>;
+            loadPre(): Promise<void>;
+        } & {
+            getAdapterMapEntry(adapterConf: {
+                [x: string]: unknown;
+            }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
+            getRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+            getReverseRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+        }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>) | undefined>;
+        getRefNameMapForAdapter(adapterConf: {
+            [x: string]: unknown;
+        }, assemblyName: string | undefined, opts: {
+            stopToken?: string;
+            sessionId: string;
+        }): Promise<{
+            [x: string]: string;
+        } | undefined>;
+        getReverseRefNameMapForAdapter(adapterConf: {
+            [x: string]: unknown;
+        }, assemblyName: string | undefined, opts: {
+            stopToken?: string;
+            sessionId: string;
+        }): Promise<{
+            [x: string]: string;
+        } | undefined>;
+        isValidRefName(refName: string, assemblyName: string): boolean;
+    } & {
+        afterAttach(): void;
+        removeAssembly(asm: import("@jbrowse/core/assemblyManager/assembly").Assembly): void;
+        addAssembly(configuration: any): void;
+    } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IModelType<{
+        assemblies: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IModelType<{
+            configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
+        }, {
+            error: unknown;
+            loadingP: Promise<void> | undefined;
+            volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            refNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            lowerCaseRefNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+        } & {
+            getConf(arg: string): any;
+        } & {
+            readonly initialized: boolean;
+            readonly name: string;
+            readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            readonly aliases: string[];
+            readonly displayName: string | undefined;
+            hasName(name: string): boolean;
+            readonly allAliases: string[];
+            readonly allRefNames: string[] | undefined;
+            readonly lowerCaseRefNames: string[] | undefined;
+            readonly allRefNamesWithLowerCase: string[] | undefined;
+            readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
+            readonly refNameColors: string[];
+        } & {
+            readonly refNames: string[] | undefined;
+        } & {
+            getCanonicalRefName(refName: string): string | undefined;
+            getRefNameColor(refName: string): string | undefined;
+            isValidRefName(refName: string): boolean;
+        } & {
+            setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, cytobands, }: {
+                regions: import("@jbrowse/core/util").Region[];
+                refNameAliases: {
+                    [x: string]: string;
+                };
+                lowerCaseRefNameAliases: {
+                    [x: string]: string;
+                };
+                cytobands: import("@jbrowse/core/util").Feature[];
+            }): void;
+            setError(e: unknown): void;
+            setRegions(regions: import("@jbrowse/core/util").Region[]): void;
+            setRefNameAliases(aliases: {
+                [x: string]: string;
+            }, lowerCaseAliases: {
+                [x: string]: string;
+            }): void;
+            setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
+            setLoadingP(p?: Promise<void>): void;
+            load(): Promise<void>;
+            loadPre(): Promise<void>;
+        } & {
+            getAdapterMapEntry(adapterConf: {
+                [x: string]: unknown;
+            }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
+            getRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+            getReverseRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+        }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
+    }, {
+        readonly assemblyNameMap: Record<string, {
+            configuration: any;
+        } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
+            error: unknown;
+            loadingP: Promise<void> | undefined;
+            volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            refNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            lowerCaseRefNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+        } & {
+            getConf(arg: string): any;
+        } & {
+            readonly initialized: boolean;
+            readonly name: string;
+            readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            readonly aliases: string[];
+            readonly displayName: string | undefined;
+            hasName(name: string): boolean;
+            readonly allAliases: string[];
+            readonly allRefNames: string[] | undefined;
+            readonly lowerCaseRefNames: string[] | undefined;
+            readonly allRefNamesWithLowerCase: string[] | undefined;
+            readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
+            readonly refNameColors: string[];
+        } & {
+            readonly refNames: string[] | undefined;
+        } & {
+            getCanonicalRefName(refName: string): string | undefined;
+            getRefNameColor(refName: string): string | undefined;
+            isValidRefName(refName: string): boolean;
+        } & {
+            setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, cytobands, }: {
+                regions: import("@jbrowse/core/util").Region[];
+                refNameAliases: {
+                    [x: string]: string;
+                };
+                lowerCaseRefNameAliases: {
+                    [x: string]: string;
+                };
+                cytobands: import("@jbrowse/core/util").Feature[];
+            }): void;
+            setError(e: unknown): void;
+            setRegions(regions: import("@jbrowse/core/util").Region[]): void;
+            setRefNameAliases(aliases: {
+                [x: string]: string;
+            }, lowerCaseAliases: {
+                [x: string]: string;
+            }): void;
+            setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
+            setLoadingP(p?: Promise<void>): void;
+            load(): Promise<void>;
+            loadPre(): Promise<void>;
+        } & {
+            getAdapterMapEntry(adapterConf: {
+                [x: string]: unknown;
+            }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
+            getRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+            getReverseRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+        } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
+            configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
+        }, {
+            error: unknown;
+            loadingP: Promise<void> | undefined;
+            volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            refNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            lowerCaseRefNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+        } & {
+            getConf(arg: string): any;
+        } & {
+            readonly initialized: boolean;
+            readonly name: string;
+            readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            readonly aliases: string[];
+            readonly displayName: string | undefined;
+            hasName(name: string): boolean;
+            readonly allAliases: string[];
+            readonly allRefNames: string[] | undefined;
+            readonly lowerCaseRefNames: string[] | undefined;
+            readonly allRefNamesWithLowerCase: string[] | undefined;
+            readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
+            readonly refNameColors: string[];
+        } & {
+            readonly refNames: string[] | undefined;
+        } & {
+            getCanonicalRefName(refName: string): string | undefined;
+            getRefNameColor(refName: string): string | undefined;
+            isValidRefName(refName: string): boolean;
+        } & {
+            setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, cytobands, }: {
+                regions: import("@jbrowse/core/util").Region[];
+                refNameAliases: {
+                    [x: string]: string;
+                };
+                lowerCaseRefNameAliases: {
+                    [x: string]: string;
+                };
+                cytobands: import("@jbrowse/core/util").Feature[];
+            }): void;
+            setError(e: unknown): void;
+            setRegions(regions: import("@jbrowse/core/util").Region[]): void;
+            setRefNameAliases(aliases: {
+                [x: string]: string;
+            }, lowerCaseAliases: {
+                [x: string]: string;
+            }): void;
+            setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
+            setLoadingP(p?: Promise<void>): void;
+            load(): Promise<void>;
+            loadPre(): Promise<void>;
+        } & {
+            getAdapterMapEntry(adapterConf: {
+                [x: string]: unknown;
+            }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
+            getRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+            getReverseRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+        }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>>;
+    } & {
+        get(asmName: string): ({
+            configuration: any;
+        } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
+            error: unknown;
+            loadingP: Promise<void> | undefined;
+            volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            refNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            lowerCaseRefNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+        } & {
+            getConf(arg: string): any;
+        } & {
+            readonly initialized: boolean;
+            readonly name: string;
+            readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            readonly aliases: string[];
+            readonly displayName: string | undefined;
+            hasName(name: string): boolean;
+            readonly allAliases: string[];
+            readonly allRefNames: string[] | undefined;
+            readonly lowerCaseRefNames: string[] | undefined;
+            readonly allRefNamesWithLowerCase: string[] | undefined;
+            readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
+            readonly refNameColors: string[];
+        } & {
+            readonly refNames: string[] | undefined;
+        } & {
+            getCanonicalRefName(refName: string): string | undefined;
+            getRefNameColor(refName: string): string | undefined;
+            isValidRefName(refName: string): boolean;
+        } & {
+            setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, cytobands, }: {
+                regions: import("@jbrowse/core/util").Region[];
+                refNameAliases: {
+                    [x: string]: string;
+                };
+                lowerCaseRefNameAliases: {
+                    [x: string]: string;
+                };
+                cytobands: import("@jbrowse/core/util").Feature[];
+            }): void;
+            setError(e: unknown): void;
+            setRegions(regions: import("@jbrowse/core/util").Region[]): void;
+            setRefNameAliases(aliases: {
+                [x: string]: string;
+            }, lowerCaseAliases: {
+                [x: string]: string;
+            }): void;
+            setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
+            setLoadingP(p?: Promise<void>): void;
+            load(): Promise<void>;
+            loadPre(): Promise<void>;
+        } & {
+            getAdapterMapEntry(adapterConf: {
+                [x: string]: unknown;
+            }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
+            getRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+            getReverseRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+        } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
+            configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
+        }, {
+            error: unknown;
+            loadingP: Promise<void> | undefined;
+            volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            refNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            lowerCaseRefNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+        } & {
+            getConf(arg: string): any;
+        } & {
+            readonly initialized: boolean;
+            readonly name: string;
+            readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            readonly aliases: string[];
+            readonly displayName: string | undefined;
+            hasName(name: string): boolean;
+            readonly allAliases: string[];
+            readonly allRefNames: string[] | undefined;
+            readonly lowerCaseRefNames: string[] | undefined;
+            readonly allRefNamesWithLowerCase: string[] | undefined;
+            readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
+            readonly refNameColors: string[];
+        } & {
+            readonly refNames: string[] | undefined;
+        } & {
+            getCanonicalRefName(refName: string): string | undefined;
+            getRefNameColor(refName: string): string | undefined;
+            isValidRefName(refName: string): boolean;
+        } & {
+            setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, cytobands, }: {
+                regions: import("@jbrowse/core/util").Region[];
+                refNameAliases: {
+                    [x: string]: string;
+                };
+                lowerCaseRefNameAliases: {
+                    [x: string]: string;
+                };
+                cytobands: import("@jbrowse/core/util").Feature[];
+            }): void;
+            setError(e: unknown): void;
+            setRegions(regions: import("@jbrowse/core/util").Region[]): void;
+            setRefNameAliases(aliases: {
+                [x: string]: string;
+            }, lowerCaseAliases: {
+                [x: string]: string;
+            }): void;
+            setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
+            setLoadingP(p?: Promise<void>): void;
+            load(): Promise<void>;
+            loadPre(): Promise<void>;
+        } & {
+            getAdapterMapEntry(adapterConf: {
+                [x: string]: unknown;
+            }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
+            getRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+            getReverseRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+        }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>) | undefined;
+        readonly assemblyNamesList: any[];
+        readonly assemblyList: import("@jbrowse/core/configuration").AnyConfigurationModel[];
+        readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
+    } & {
+        waitForAssembly(assemblyName: string): Promise<({
+            configuration: any;
+        } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
+            error: unknown;
+            loadingP: Promise<void> | undefined;
+            volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            refNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            lowerCaseRefNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+        } & {
+            getConf(arg: string): any;
+        } & {
+            readonly initialized: boolean;
+            readonly name: string;
+            readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            readonly aliases: string[];
+            readonly displayName: string | undefined;
+            hasName(name: string): boolean;
+            readonly allAliases: string[];
+            readonly allRefNames: string[] | undefined;
+            readonly lowerCaseRefNames: string[] | undefined;
+            readonly allRefNamesWithLowerCase: string[] | undefined;
+            readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
+            readonly refNameColors: string[];
+        } & {
+            readonly refNames: string[] | undefined;
+        } & {
+            getCanonicalRefName(refName: string): string | undefined;
+            getRefNameColor(refName: string): string | undefined;
+            isValidRefName(refName: string): boolean;
+        } & {
+            setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, cytobands, }: {
+                regions: import("@jbrowse/core/util").Region[];
+                refNameAliases: {
+                    [x: string]: string;
+                };
+                lowerCaseRefNameAliases: {
+                    [x: string]: string;
+                };
+                cytobands: import("@jbrowse/core/util").Feature[];
+            }): void;
+            setError(e: unknown): void;
+            setRegions(regions: import("@jbrowse/core/util").Region[]): void;
+            setRefNameAliases(aliases: {
+                [x: string]: string;
+            }, lowerCaseAliases: {
+                [x: string]: string;
+            }): void;
+            setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
+            setLoadingP(p?: Promise<void>): void;
+            load(): Promise<void>;
+            loadPre(): Promise<void>;
+        } & {
+            getAdapterMapEntry(adapterConf: {
+                [x: string]: unknown;
+            }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
+            getRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+            getReverseRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+        } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
+            configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
+        }, {
+            error: unknown;
+            loadingP: Promise<void> | undefined;
+            volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            refNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            lowerCaseRefNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+        } & {
+            getConf(arg: string): any;
+        } & {
+            readonly initialized: boolean;
+            readonly name: string;
+            readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            readonly aliases: string[];
+            readonly displayName: string | undefined;
+            hasName(name: string): boolean;
+            readonly allAliases: string[];
+            readonly allRefNames: string[] | undefined;
+            readonly lowerCaseRefNames: string[] | undefined;
+            readonly allRefNamesWithLowerCase: string[] | undefined;
+            readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
+            readonly refNameColors: string[];
+        } & {
+            readonly refNames: string[] | undefined;
+        } & {
+            getCanonicalRefName(refName: string): string | undefined;
+            getRefNameColor(refName: string): string | undefined;
+            isValidRefName(refName: string): boolean;
+        } & {
+            setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, cytobands, }: {
+                regions: import("@jbrowse/core/util").Region[];
+                refNameAliases: {
+                    [x: string]: string;
+                };
+                lowerCaseRefNameAliases: {
+                    [x: string]: string;
+                };
+                cytobands: import("@jbrowse/core/util").Feature[];
+            }): void;
+            setError(e: unknown): void;
+            setRegions(regions: import("@jbrowse/core/util").Region[]): void;
+            setRefNameAliases(aliases: {
+                [x: string]: string;
+            }, lowerCaseAliases: {
+                [x: string]: string;
+            }): void;
+            setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
+            setLoadingP(p?: Promise<void>): void;
+            load(): Promise<void>;
+            loadPre(): Promise<void>;
+        } & {
+            getAdapterMapEntry(adapterConf: {
+                [x: string]: unknown;
+            }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
+            getRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+            getReverseRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+        }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>) | undefined>;
+        getRefNameMapForAdapter(adapterConf: {
+            [x: string]: unknown;
+        }, assemblyName: string | undefined, opts: {
+            stopToken?: string;
+            sessionId: string;
+        }): Promise<{
+            [x: string]: string;
+        } | undefined>;
+        getReverseRefNameMapForAdapter(adapterConf: {
+            [x: string]: unknown;
+        }, assemblyName: string | undefined, opts: {
+            stopToken?: string;
+            sessionId: string;
+        }): Promise<{
+            [x: string]: string;
+        } | undefined>;
+        isValidRefName(refName: string, assemblyName: string): boolean;
+    } & {
+        afterAttach(): void;
+        removeAssembly(asm: import("@jbrowse/core/assemblyManager/assembly").Assembly): void;
+        addAssembly(configuration: any): void;
+    }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>, [undefined]>>;
+    internetAccounts: import("mobx-state-tree").IMSTArray<import("mobx-state-tree").IAnyType> & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyType>>;
+} & import("mobx-state-tree/dist/internal").NonEmptyObject & {
+    rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
+    adminMode: boolean;
+    error: unknown;
+    textSearchManager: import("@jbrowse/core/util").TextSearchManager;
+    pluginManager: import("@jbrowse/core/PluginManager").default;
+} & {
+    setError(error: unknown): void;
+    setSession(sessionSnapshot?: SnapshotIn<import("mobx-state-tree").IAnyType>): void;
+    setDefaultSession(): void;
+    setSessionPath(path: string): void;
+    renameCurrentSession(newName: string): void;
+} & {
+    initializeInternetAccount(internetAccountConfig: import("@jbrowse/core/configuration").AnyConfigurationModel, initialSnapshot?: {}): any;
+    createEphemeralInternetAccount(internetAccountId: string, initialSnapshot: Record<string, unknown>, url: string): any;
+    findAppropriateInternetAccount(location: import("@jbrowse/core/util").UriLocation): any;
+} & {
+    afterCreate(): void;
+} & {
+    mutableMenuActions: import("@jbrowse/app-core").MenuAction[];
+} & {
+    setMenus(newMenus: import("@jbrowse/app-core").Menu[]): void;
+    appendMenu(menuName: string): void;
+    insertMenu(menuName: string, position: number): void;
+    appendToMenu(menuName: string, menuItem: import("@jbrowse/core/ui").MenuItem): void;
+    insertInMenu(menuName: string, menuItem: import("@jbrowse/core/ui").MenuItem, position: number): void;
+    appendToSubMenu(menuPath: string[], menuItem: import("@jbrowse/core/ui").MenuItem): void;
+    insertInSubMenu(menuPath: string[], menuItem: import("@jbrowse/core/ui").MenuItem, position: number): void;
+} & {
+    version: string;
+    pluginsUpdated: boolean;
+    rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
+    textSearchManager: import("@jbrowse/core/util").TextSearchManager;
+    error: unknown;
+} & {
+    afterCreate(): void;
+    setSession(sessionSnapshot?: SnapshotIn<import("@jbrowse/product-core").BaseSessionType>): void;
+    setPluginsUpdated(flag: boolean): void;
+    setDefaultSession(): void;
+    renameCurrentSession(sessionName: string): void;
+    setError(error?: unknown): void;
+} & {
+    menus(): import("@jbrowse/app-core").Menu[];
+} & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
+    jbrowse: import("mobx-state-tree").IAnyType;
+    session: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IAnyType>;
+    sessionPath: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
+    assemblyManager: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IModelType<{
+        assemblies: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IModelType<{
+            configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
+        }, {
+            error: unknown;
+            loadingP: Promise<void> | undefined;
+            volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            refNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            lowerCaseRefNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+        } & {
+            getConf(arg: string): any;
+        } & {
+            readonly initialized: boolean;
+            readonly name: string;
+            readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            readonly aliases: string[];
+            readonly displayName: string | undefined;
+            hasName(name: string): boolean;
+            readonly allAliases: string[];
+            readonly allRefNames: string[] | undefined;
+            readonly lowerCaseRefNames: string[] | undefined;
+            readonly allRefNamesWithLowerCase: string[] | undefined;
+            readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
+            readonly refNameColors: string[];
+        } & {
+            readonly refNames: string[] | undefined;
+        } & {
+            getCanonicalRefName(refName: string): string | undefined;
+            getRefNameColor(refName: string): string | undefined;
+            isValidRefName(refName: string): boolean;
+        } & {
+            setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, cytobands, }: {
+                regions: import("@jbrowse/core/util").Region[];
+                refNameAliases: {
+                    [x: string]: string;
+                };
+                lowerCaseRefNameAliases: {
+                    [x: string]: string;
+                };
+                cytobands: import("@jbrowse/core/util").Feature[];
+            }): void;
+            setError(e: unknown): void;
+            setRegions(regions: import("@jbrowse/core/util").Region[]): void;
+            setRefNameAliases(aliases: {
+                [x: string]: string;
+            }, lowerCaseAliases: {
+                [x: string]: string;
+            }): void;
+            setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
+            setLoadingP(p?: Promise<void>): void;
+            load(): Promise<void>;
+            loadPre(): Promise<void>;
+        } & {
+            getAdapterMapEntry(adapterConf: {
+                [x: string]: unknown;
+            }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
+            getRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+            getReverseRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+        }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
+    }, {
+        readonly assemblyNameMap: Record<string, {
+            configuration: any;
+        } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
+            error: unknown;
+            loadingP: Promise<void> | undefined;
+            volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            refNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            lowerCaseRefNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+        } & {
+            getConf(arg: string): any;
+        } & {
+            readonly initialized: boolean;
+            readonly name: string;
+            readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            readonly aliases: string[];
+            readonly displayName: string | undefined;
+            hasName(name: string): boolean;
+            readonly allAliases: string[];
+            readonly allRefNames: string[] | undefined;
+            readonly lowerCaseRefNames: string[] | undefined;
+            readonly allRefNamesWithLowerCase: string[] | undefined;
+            readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
+            readonly refNameColors: string[];
+        } & {
+            readonly refNames: string[] | undefined;
+        } & {
+            getCanonicalRefName(refName: string): string | undefined;
+            getRefNameColor(refName: string): string | undefined;
+            isValidRefName(refName: string): boolean;
+        } & {
+            setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, cytobands, }: {
+                regions: import("@jbrowse/core/util").Region[];
+                refNameAliases: {
+                    [x: string]: string;
+                };
+                lowerCaseRefNameAliases: {
+                    [x: string]: string;
+                };
+                cytobands: import("@jbrowse/core/util").Feature[];
+            }): void;
+            setError(e: unknown): void;
+            setRegions(regions: import("@jbrowse/core/util").Region[]): void;
+            setRefNameAliases(aliases: {
+                [x: string]: string;
+            }, lowerCaseAliases: {
+                [x: string]: string;
+            }): void;
+            setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
+            setLoadingP(p?: Promise<void>): void;
+            load(): Promise<void>;
+            loadPre(): Promise<void>;
+        } & {
+            getAdapterMapEntry(adapterConf: {
+                [x: string]: unknown;
+            }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
+            getRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+            getReverseRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+        } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
+            configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
+        }, {
+            error: unknown;
+            loadingP: Promise<void> | undefined;
+            volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            refNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            lowerCaseRefNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+        } & {
+            getConf(arg: string): any;
+        } & {
+            readonly initialized: boolean;
+            readonly name: string;
+            readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            readonly aliases: string[];
+            readonly displayName: string | undefined;
+            hasName(name: string): boolean;
+            readonly allAliases: string[];
+            readonly allRefNames: string[] | undefined;
+            readonly lowerCaseRefNames: string[] | undefined;
+            readonly allRefNamesWithLowerCase: string[] | undefined;
+            readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
+            readonly refNameColors: string[];
+        } & {
+            readonly refNames: string[] | undefined;
+        } & {
+            getCanonicalRefName(refName: string): string | undefined;
+            getRefNameColor(refName: string): string | undefined;
+            isValidRefName(refName: string): boolean;
+        } & {
+            setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, cytobands, }: {
+                regions: import("@jbrowse/core/util").Region[];
+                refNameAliases: {
+                    [x: string]: string;
+                };
+                lowerCaseRefNameAliases: {
+                    [x: string]: string;
+                };
+                cytobands: import("@jbrowse/core/util").Feature[];
+            }): void;
+            setError(e: unknown): void;
+            setRegions(regions: import("@jbrowse/core/util").Region[]): void;
+            setRefNameAliases(aliases: {
+                [x: string]: string;
+            }, lowerCaseAliases: {
+                [x: string]: string;
+            }): void;
+            setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
+            setLoadingP(p?: Promise<void>): void;
+            load(): Promise<void>;
+            loadPre(): Promise<void>;
+        } & {
+            getAdapterMapEntry(adapterConf: {
+                [x: string]: unknown;
+            }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
+            getRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+            getReverseRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+        }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>>;
+    } & {
+        get(asmName: string): ({
+            configuration: any;
+        } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
+            error: unknown;
+            loadingP: Promise<void> | undefined;
+            volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            refNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            lowerCaseRefNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+        } & {
+            getConf(arg: string): any;
+        } & {
+            readonly initialized: boolean;
+            readonly name: string;
+            readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            readonly aliases: string[];
+            readonly displayName: string | undefined;
+            hasName(name: string): boolean;
+            readonly allAliases: string[];
+            readonly allRefNames: string[] | undefined;
+            readonly lowerCaseRefNames: string[] | undefined;
+            readonly allRefNamesWithLowerCase: string[] | undefined;
+            readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
+            readonly refNameColors: string[];
+        } & {
+            readonly refNames: string[] | undefined;
+        } & {
+            getCanonicalRefName(refName: string): string | undefined;
+            getRefNameColor(refName: string): string | undefined;
+            isValidRefName(refName: string): boolean;
+        } & {
+            setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, cytobands, }: {
+                regions: import("@jbrowse/core/util").Region[];
+                refNameAliases: {
+                    [x: string]: string;
+                };
+                lowerCaseRefNameAliases: {
+                    [x: string]: string;
+                };
+                cytobands: import("@jbrowse/core/util").Feature[];
+            }): void;
+            setError(e: unknown): void;
+            setRegions(regions: import("@jbrowse/core/util").Region[]): void;
+            setRefNameAliases(aliases: {
+                [x: string]: string;
+            }, lowerCaseAliases: {
+                [x: string]: string;
+            }): void;
+            setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
+            setLoadingP(p?: Promise<void>): void;
+            load(): Promise<void>;
+            loadPre(): Promise<void>;
+        } & {
+            getAdapterMapEntry(adapterConf: {
+                [x: string]: unknown;
+            }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
+            getRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+            getReverseRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+        } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
+            configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
+        }, {
+            error: unknown;
+            loadingP: Promise<void> | undefined;
+            volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            refNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            lowerCaseRefNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+        } & {
+            getConf(arg: string): any;
+        } & {
+            readonly initialized: boolean;
+            readonly name: string;
+            readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            readonly aliases: string[];
+            readonly displayName: string | undefined;
+            hasName(name: string): boolean;
+            readonly allAliases: string[];
+            readonly allRefNames: string[] | undefined;
+            readonly lowerCaseRefNames: string[] | undefined;
+            readonly allRefNamesWithLowerCase: string[] | undefined;
+            readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
+            readonly refNameColors: string[];
+        } & {
+            readonly refNames: string[] | undefined;
+        } & {
+            getCanonicalRefName(refName: string): string | undefined;
+            getRefNameColor(refName: string): string | undefined;
+            isValidRefName(refName: string): boolean;
+        } & {
+            setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, cytobands, }: {
+                regions: import("@jbrowse/core/util").Region[];
+                refNameAliases: {
+                    [x: string]: string;
+                };
+                lowerCaseRefNameAliases: {
+                    [x: string]: string;
+                };
+                cytobands: import("@jbrowse/core/util").Feature[];
+            }): void;
+            setError(e: unknown): void;
+            setRegions(regions: import("@jbrowse/core/util").Region[]): void;
+            setRefNameAliases(aliases: {
+                [x: string]: string;
+            }, lowerCaseAliases: {
+                [x: string]: string;
+            }): void;
+            setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
+            setLoadingP(p?: Promise<void>): void;
+            load(): Promise<void>;
+            loadPre(): Promise<void>;
+        } & {
+            getAdapterMapEntry(adapterConf: {
+                [x: string]: unknown;
+            }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
+            getRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+            getReverseRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+        }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>) | undefined;
+        readonly assemblyNamesList: any[];
+        readonly assemblyList: import("@jbrowse/core/configuration").AnyConfigurationModel[];
+        readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
+    } & {
+        waitForAssembly(assemblyName: string): Promise<({
+            configuration: any;
+        } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
+            error: unknown;
+            loadingP: Promise<void> | undefined;
+            volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            refNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            lowerCaseRefNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+        } & {
+            getConf(arg: string): any;
+        } & {
+            readonly initialized: boolean;
+            readonly name: string;
+            readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            readonly aliases: string[];
+            readonly displayName: string | undefined;
+            hasName(name: string): boolean;
+            readonly allAliases: string[];
+            readonly allRefNames: string[] | undefined;
+            readonly lowerCaseRefNames: string[] | undefined;
+            readonly allRefNamesWithLowerCase: string[] | undefined;
+            readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
+            readonly refNameColors: string[];
+        } & {
+            readonly refNames: string[] | undefined;
+        } & {
+            getCanonicalRefName(refName: string): string | undefined;
+            getRefNameColor(refName: string): string | undefined;
+            isValidRefName(refName: string): boolean;
+        } & {
+            setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, cytobands, }: {
+                regions: import("@jbrowse/core/util").Region[];
+                refNameAliases: {
+                    [x: string]: string;
+                };
+                lowerCaseRefNameAliases: {
+                    [x: string]: string;
+                };
+                cytobands: import("@jbrowse/core/util").Feature[];
+            }): void;
+            setError(e: unknown): void;
+            setRegions(regions: import("@jbrowse/core/util").Region[]): void;
+            setRefNameAliases(aliases: {
+                [x: string]: string;
+            }, lowerCaseAliases: {
+                [x: string]: string;
+            }): void;
+            setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
+            setLoadingP(p?: Promise<void>): void;
+            load(): Promise<void>;
+            loadPre(): Promise<void>;
+        } & {
+            getAdapterMapEntry(adapterConf: {
+                [x: string]: unknown;
+            }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
+            getRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+            getReverseRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+        } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
+            configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
+        }, {
+            error: unknown;
+            loadingP: Promise<void> | undefined;
+            volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            refNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            lowerCaseRefNameAliases: {
+                [x: string]: string;
+            } | undefined;
+            cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+        } & {
+            getConf(arg: string): any;
+        } & {
+            readonly initialized: boolean;
+            readonly name: string;
+            readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+            readonly aliases: string[];
+            readonly displayName: string | undefined;
+            hasName(name: string): boolean;
+            readonly allAliases: string[];
+            readonly allRefNames: string[] | undefined;
+            readonly lowerCaseRefNames: string[] | undefined;
+            readonly allRefNamesWithLowerCase: string[] | undefined;
+            readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
+            readonly refNameColors: string[];
+        } & {
+            readonly refNames: string[] | undefined;
+        } & {
+            getCanonicalRefName(refName: string): string | undefined;
+            getRefNameColor(refName: string): string | undefined;
+            isValidRefName(refName: string): boolean;
+        } & {
+            setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, cytobands, }: {
+                regions: import("@jbrowse/core/util").Region[];
+                refNameAliases: {
+                    [x: string]: string;
+                };
+                lowerCaseRefNameAliases: {
+                    [x: string]: string;
+                };
+                cytobands: import("@jbrowse/core/util").Feature[];
+            }): void;
+            setError(e: unknown): void;
+            setRegions(regions: import("@jbrowse/core/util").Region[]): void;
+            setRefNameAliases(aliases: {
+                [x: string]: string;
+            }, lowerCaseAliases: {
+                [x: string]: string;
+            }): void;
+            setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
+            setLoadingP(p?: Promise<void>): void;
+            load(): Promise<void>;
+            loadPre(): Promise<void>;
+        } & {
+            getAdapterMapEntry(adapterConf: {
+                [x: string]: unknown;
+            }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
+            getRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+            getReverseRefNameMapForAdapter(adapterConf: {
+                [x: string]: unknown;
+            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                [x: string]: string;
+            }>;
+        }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>) | undefined>;
+        getRefNameMapForAdapter(adapterConf: {
+            [x: string]: unknown;
+        }, assemblyName: string | undefined, opts: {
+            stopToken?: string;
+            sessionId: string;
+        }): Promise<{
+            [x: string]: string;
+        } | undefined>;
+        getReverseRefNameMapForAdapter(adapterConf: {
+            [x: string]: unknown;
+        }, assemblyName: string | undefined, opts: {
+            stopToken?: string;
+            sessionId: string;
+        }): Promise<{
+            [x: string]: string;
+        } | undefined>;
+        isValidRefName(refName: string, assemblyName: string): boolean;
+    } & {
+        afterAttach(): void;
+        removeAssembly(asm: import("@jbrowse/core/assemblyManager/assembly").Assembly): void;
+        addAssembly(configuration: any): void;
+    }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>, [undefined]>;
+} & {
+    internetAccounts: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyType>;
+}, {
+    rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
+    adminMode: boolean;
+    error: unknown;
+    textSearchManager: import("@jbrowse/core/util").TextSearchManager;
+    pluginManager: import("@jbrowse/core/PluginManager").default;
+} & {
+    setError(error: unknown): void;
+    setSession(sessionSnapshot?: SnapshotIn<import("mobx-state-tree").IAnyType>): void;
+    setDefaultSession(): void;
+    setSessionPath(path: string): void;
+    renameCurrentSession(newName: string): void;
+} & {
+    initializeInternetAccount(internetAccountConfig: import("@jbrowse/core/configuration").AnyConfigurationModel, initialSnapshot?: {}): any;
+    createEphemeralInternetAccount(internetAccountId: string, initialSnapshot: Record<string, unknown>, url: string): any;
+    findAppropriateInternetAccount(location: import("@jbrowse/core/util").UriLocation): any;
+} & {
+    afterCreate(): void;
+} & {
+    mutableMenuActions: import("@jbrowse/app-core").MenuAction[];
+} & {
+    setMenus(newMenus: import("@jbrowse/app-core").Menu[]): void;
+    appendMenu(menuName: string): void;
+    insertMenu(menuName: string, position: number): void;
+    appendToMenu(menuName: string, menuItem: import("@jbrowse/core/ui").MenuItem): void;
+    insertInMenu(menuName: string, menuItem: import("@jbrowse/core/ui").MenuItem, position: number): void;
+    appendToSubMenu(menuPath: string[], menuItem: import("@jbrowse/core/ui").MenuItem): void;
+    insertInSubMenu(menuPath: string[], menuItem: import("@jbrowse/core/ui").MenuItem, position: number): void;
+} & {
+    version: string;
+    pluginsUpdated: boolean;
+    rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
+    textSearchManager: import("@jbrowse/core/util").TextSearchManager;
+    error: unknown;
+} & {
+    afterCreate(): void;
+    setSession(sessionSnapshot?: SnapshotIn<import("@jbrowse/product-core").BaseSessionType>): void;
+    setPluginsUpdated(flag: boolean): void;
+    setDefaultSession(): void;
+    renameCurrentSession(sessionName: string): void;
+    setError(error?: unknown): void;
+} & {
+    menus(): import("@jbrowse/app-core").Menu[];
+}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
+export {};