@jbrowse/product-core 3.5.0 → 3.5.1

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (9) hide show
  1. package/dist/RootModel/BaseRootModel.d.ts +42 -70
  2. package/dist/Session/MultipleViews.d.ts +132 -220
  3. package/dist/Session/SessionTracks.d.ts +132 -220
  4. package/dist/Session/Tracks.d.ts +132 -220
  5. package/esm/RootModel/BaseRootModel.d.ts +42 -70
  6. package/esm/Session/MultipleViews.d.ts +132 -220
  7. package/esm/Session/SessionTracks.d.ts +132 -220
  8. package/esm/Session/Tracks.d.ts +132 -220
  9. package/package.json +3 -3
package/esm/RootModel/BaseRootModel.d.ts CHANGED
@@ -22,18 +22,18 @@ export declare function BaseRootModelFactory({ pluginManager, jbrowseModelType,
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  refNameAliases: {
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  [x: string]: string;
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  } | undefined;
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- lowerCaseRefNameAliases: {
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- [x: string]: string;
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- } | undefined;
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  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
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  } & {
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  getConf(arg: string): any;
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+ readonly lowerCaseRefNameAliases: {
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+ [k: string]: string;
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+ } | undefined;
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  } & {
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  readonly initialized: boolean;
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  readonly name: string;
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  readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
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  readonly aliases: string[];
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- readonly displayName: string | undefined;
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+ readonly displayName: string;
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  hasName(name: string): boolean;
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  readonly allAliases: string[];
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  readonly allRefNames: string[] | undefined;
@@ -48,22 +48,17 @@ export declare function BaseRootModelFactory({ pluginManager, jbrowseModelType,
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  getRefNameColor(refName: string): string | undefined;
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  isValidRefName(refName: string): boolean;
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  } & {
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- setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, cytobands, }: {
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+ setLoaded({ regions, refNameAliases, cytobands, }: {
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  regions: import("@jbrowse/core/util").Region[];
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  refNameAliases: {
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  [x: string]: string;
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  };
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- lowerCaseRefNameAliases: {
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- [x: string]: string;
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- };
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  cytobands: import("@jbrowse/core/util").Feature[];
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  }): void;
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  setError(e: unknown): void;
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  setRegions(regions: import("@jbrowse/core/util").Region[]): void;
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  setRefNameAliases(aliases: {
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  [x: string]: string;
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- }, lowerCaseAliases: {
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- [x: string]: string;
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  }): void;
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  setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
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  setLoadingP(p?: Promise<void>): void;
@@ -83,6 +78,7 @@ export declare function BaseRootModelFactory({ pluginManager, jbrowseModelType,
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  }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
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  [x: string]: string;
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  }>;
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+ afterCreate(): void;
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  }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
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  }, {
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  readonly assemblyNameMap: Record<string, {
@@ -94,18 +90,18 @@ export declare function BaseRootModelFactory({ pluginManager, jbrowseModelType,
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  refNameAliases: {
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  [x: string]: string;
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  } | undefined;
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- lowerCaseRefNameAliases: {
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- [x: string]: string;
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- } | undefined;
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  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
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  } & {
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  getConf(arg: string): any;
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+ readonly lowerCaseRefNameAliases: {
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+ [k: string]: string;
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+ } | undefined;
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  } & {
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  readonly initialized: boolean;
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  readonly name: string;
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  readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
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  readonly aliases: string[];
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- readonly displayName: string | undefined;
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+ readonly displayName: string;
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  hasName(name: string): boolean;
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  readonly allAliases: string[];
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  readonly allRefNames: string[] | undefined;
@@ -120,22 +116,17 @@ export declare function BaseRootModelFactory({ pluginManager, jbrowseModelType,
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  getRefNameColor(refName: string): string | undefined;
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  isValidRefName(refName: string): boolean;
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  } & {
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- setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, cytobands, }: {
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+ setLoaded({ regions, refNameAliases, cytobands, }: {
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  regions: import("@jbrowse/core/util").Region[];
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  refNameAliases: {
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  [x: string]: string;
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  };
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- lowerCaseRefNameAliases: {
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- [x: string]: string;
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- };
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  cytobands: import("@jbrowse/core/util").Feature[];
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  }): void;
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  setError(e: unknown): void;
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  setRegions(regions: import("@jbrowse/core/util").Region[]): void;
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  setRefNameAliases(aliases: {
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  [x: string]: string;
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- }, lowerCaseAliases: {
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- [x: string]: string;
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  }): void;
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  setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
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  setLoadingP(p?: Promise<void>): void;
@@ -155,6 +146,7 @@ export declare function BaseRootModelFactory({ pluginManager, jbrowseModelType,
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  }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
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  [x: string]: string;
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  }>;
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+ afterCreate(): void;
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  } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
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  configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<IAnyType>>;
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  }, {
@@ -164,18 +156,18 @@ export declare function BaseRootModelFactory({ pluginManager, jbrowseModelType,
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  refNameAliases: {
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  [x: string]: string;
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  } | undefined;
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- lowerCaseRefNameAliases: {
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- [x: string]: string;
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- } | undefined;
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  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
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  } & {
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  getConf(arg: string): any;
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+ readonly lowerCaseRefNameAliases: {
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+ [k: string]: string;
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+ } | undefined;
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  } & {
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  readonly initialized: boolean;
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  readonly name: string;
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  readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
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  readonly aliases: string[];
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- readonly displayName: string | undefined;
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+ readonly displayName: string;
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  hasName(name: string): boolean;
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  readonly allAliases: string[];
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  readonly allRefNames: string[] | undefined;
@@ -190,22 +182,17 @@ export declare function BaseRootModelFactory({ pluginManager, jbrowseModelType,
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  getRefNameColor(refName: string): string | undefined;
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  isValidRefName(refName: string): boolean;
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  } & {
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- setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, cytobands, }: {
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+ setLoaded({ regions, refNameAliases, cytobands, }: {
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  regions: import("@jbrowse/core/util").Region[];
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  refNameAliases: {
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  [x: string]: string;
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  };
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- lowerCaseRefNameAliases: {
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- [x: string]: string;
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- };
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  cytobands: import("@jbrowse/core/util").Feature[];
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  }): void;
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  setError(e: unknown): void;
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  setRegions(regions: import("@jbrowse/core/util").Region[]): void;
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  setRefNameAliases(aliases: {
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  [x: string]: string;
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- }, lowerCaseAliases: {
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- [x: string]: string;
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  }): void;
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  setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
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  setLoadingP(p?: Promise<void>): void;
@@ -225,6 +212,7 @@ export declare function BaseRootModelFactory({ pluginManager, jbrowseModelType,
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  }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
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  [x: string]: string;
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  }>;
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+ afterCreate(): void;
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  }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>>;
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  } & {
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  get(asmName: string): ({
@@ -236,18 +224,18 @@ export declare function BaseRootModelFactory({ pluginManager, jbrowseModelType,
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  refNameAliases: {
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  [x: string]: string;
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  } | undefined;
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- lowerCaseRefNameAliases: {
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- [x: string]: string;
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- } | undefined;
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  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
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  } & {
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  getConf(arg: string): any;
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+ readonly lowerCaseRefNameAliases: {
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+ [k: string]: string;
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+ } | undefined;
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  } & {
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  readonly initialized: boolean;
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  readonly name: string;
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  readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
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  readonly aliases: string[];
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- readonly displayName: string | undefined;
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+ readonly displayName: string;
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  hasName(name: string): boolean;
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  readonly allAliases: string[];
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  readonly allRefNames: string[] | undefined;
@@ -262,22 +250,17 @@ export declare function BaseRootModelFactory({ pluginManager, jbrowseModelType,
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  getRefNameColor(refName: string): string | undefined;
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  isValidRefName(refName: string): boolean;
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  } & {
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- setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, cytobands, }: {
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+ setLoaded({ regions, refNameAliases, cytobands, }: {
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  regions: import("@jbrowse/core/util").Region[];
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  refNameAliases: {
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  [x: string]: string;
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  };
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- lowerCaseRefNameAliases: {
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- [x: string]: string;
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- };
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  cytobands: import("@jbrowse/core/util").Feature[];
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  }): void;
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  setError(e: unknown): void;
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  setRegions(regions: import("@jbrowse/core/util").Region[]): void;
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  setRefNameAliases(aliases: {
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  [x: string]: string;
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- }, lowerCaseAliases: {
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- [x: string]: string;
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  }): void;
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  setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
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  setLoadingP(p?: Promise<void>): void;
@@ -297,6 +280,7 @@ export declare function BaseRootModelFactory({ pluginManager, jbrowseModelType,
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  }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
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  [x: string]: string;
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  }>;
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+ afterCreate(): void;
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  } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
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  configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<IAnyType>>;
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  }, {
@@ -306,18 +290,18 @@ export declare function BaseRootModelFactory({ pluginManager, jbrowseModelType,
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  refNameAliases: {
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  [x: string]: string;
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  } | undefined;
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- lowerCaseRefNameAliases: {
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- [x: string]: string;
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- } | undefined;
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  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
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  } & {
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  getConf(arg: string): any;
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+ readonly lowerCaseRefNameAliases: {
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+ [k: string]: string;
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+ } | undefined;
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  } & {
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  readonly initialized: boolean;
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  readonly name: string;
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  readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
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  readonly aliases: string[];
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- readonly displayName: string | undefined;
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+ readonly displayName: string;
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  hasName(name: string): boolean;
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  readonly allAliases: string[];
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  readonly allRefNames: string[] | undefined;
@@ -332,22 +316,17 @@ export declare function BaseRootModelFactory({ pluginManager, jbrowseModelType,
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  getRefNameColor(refName: string): string | undefined;
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  isValidRefName(refName: string): boolean;
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  } & {
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- setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, cytobands, }: {
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+ setLoaded({ regions, refNameAliases, cytobands, }: {
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  regions: import("@jbrowse/core/util").Region[];
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  refNameAliases: {
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  [x: string]: string;
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  };
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- lowerCaseRefNameAliases: {
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- [x: string]: string;
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- };
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  cytobands: import("@jbrowse/core/util").Feature[];
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  }): void;
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  setError(e: unknown): void;
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  setRegions(regions: import("@jbrowse/core/util").Region[]): void;
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  setRefNameAliases(aliases: {
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  [x: string]: string;
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- }, lowerCaseAliases: {
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- [x: string]: string;
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  }): void;
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  setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
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  setLoadingP(p?: Promise<void>): void;
@@ -367,6 +346,7 @@ export declare function BaseRootModelFactory({ pluginManager, jbrowseModelType,
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  }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
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  [x: string]: string;
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  }>;
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+ afterCreate(): void;
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  }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>) | undefined;
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  readonly assemblyNamesList: any[];
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  readonly assemblyList: import("@jbrowse/core/configuration").AnyConfigurationModel[];
@@ -381,18 +361,18 @@ export declare function BaseRootModelFactory({ pluginManager, jbrowseModelType,
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  refNameAliases: {
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  [x: string]: string;
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  } | undefined;
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- lowerCaseRefNameAliases: {
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- [x: string]: string;
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- } | undefined;
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  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
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  } & {
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  getConf(arg: string): any;
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+ readonly lowerCaseRefNameAliases: {
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+ [k: string]: string;
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+ } | undefined;
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  } & {
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  readonly initialized: boolean;
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  readonly name: string;
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  readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
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  readonly aliases: string[];
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- readonly displayName: string | undefined;
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+ readonly displayName: string;
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  hasName(name: string): boolean;
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  readonly allAliases: string[];
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  readonly allRefNames: string[] | undefined;
@@ -407,22 +387,17 @@ export declare function BaseRootModelFactory({ pluginManager, jbrowseModelType,
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  getRefNameColor(refName: string): string | undefined;
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  isValidRefName(refName: string): boolean;
409
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  } & {
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- setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, cytobands, }: {
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+ setLoaded({ regions, refNameAliases, cytobands, }: {
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  regions: import("@jbrowse/core/util").Region[];
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  refNameAliases: {
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  [x: string]: string;
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  };
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- lowerCaseRefNameAliases: {
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- [x: string]: string;
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- };
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  cytobands: import("@jbrowse/core/util").Feature[];
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  }): void;
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  setError(e: unknown): void;
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  setRegions(regions: import("@jbrowse/core/util").Region[]): void;
422
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  setRefNameAliases(aliases: {
423
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  [x: string]: string;
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- }, lowerCaseAliases: {
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- [x: string]: string;
426
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  }): void;
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  setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
428
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  setLoadingP(p?: Promise<void>): void;
@@ -442,6 +417,7 @@ export declare function BaseRootModelFactory({ pluginManager, jbrowseModelType,
442
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  }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
443
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  [x: string]: string;
444
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  }>;
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+ afterCreate(): void;
445
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  } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
446
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  configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<IAnyType>>;
447
423
  }, {
@@ -451,18 +427,18 @@ export declare function BaseRootModelFactory({ pluginManager, jbrowseModelType,
451
427
  refNameAliases: {
452
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  [x: string]: string;
453
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  } | undefined;
454
- lowerCaseRefNameAliases: {
455
- [x: string]: string;
456
- } | undefined;
457
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  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
458
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  } & {
459
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  getConf(arg: string): any;
433
+ readonly lowerCaseRefNameAliases: {
434
+ [k: string]: string;
435
+ } | undefined;
460
436
  } & {
461
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  readonly initialized: boolean;
462
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  readonly name: string;
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  readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
464
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  readonly aliases: string[];
465
- readonly displayName: string | undefined;
441
+ readonly displayName: string;
466
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  hasName(name: string): boolean;
467
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  readonly allAliases: string[];
468
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  readonly allRefNames: string[] | undefined;
@@ -477,22 +453,17 @@ export declare function BaseRootModelFactory({ pluginManager, jbrowseModelType,
477
453
  getRefNameColor(refName: string): string | undefined;
478
454
  isValidRefName(refName: string): boolean;
479
455
  } & {
480
- setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, cytobands, }: {
456
+ setLoaded({ regions, refNameAliases, cytobands, }: {
481
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  regions: import("@jbrowse/core/util").Region[];
482
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  refNameAliases: {
483
459
  [x: string]: string;
484
460
  };
485
- lowerCaseRefNameAliases: {
486
- [x: string]: string;
487
- };
488
461
  cytobands: import("@jbrowse/core/util").Feature[];
489
462
  }): void;
490
463
  setError(e: unknown): void;
491
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  setRegions(regions: import("@jbrowse/core/util").Region[]): void;
492
465
  setRefNameAliases(aliases: {
493
466
  [x: string]: string;
494
- }, lowerCaseAliases: {
495
- [x: string]: string;
496
467
  }): void;
497
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  setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
498
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  setLoadingP(p?: Promise<void>): void;
@@ -512,6 +483,7 @@ export declare function BaseRootModelFactory({ pluginManager, jbrowseModelType,
512
483
  }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
513
484
  [x: string]: string;
514
485
  }>;
486
+ afterCreate(): void;
515
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  }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>) | undefined>;
516
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  getRefNameMapForAdapter(adapterConf: {
517
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  [x: string]: unknown;