@jbrowse/product-core 5.0.0-beta.13 → 5.0.0-beta.14

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 (47) hide show
  1. package/esm/RootModel/BaseRootModel.d.ts +88 -47
  2. package/esm/RootModel/BaseRootModel.js +45 -2
  3. package/esm/RootModel/HierarchicalConfig.d.ts +3 -1
  4. package/esm/RootModel/HierarchicalConfig.js +3 -1
  5. package/esm/RootModel/InternetAccounts.d.ts +2 -0
  6. package/esm/RootModel/InternetAccounts.js +2 -0
  7. package/esm/RootModel/PreferencesConfig.d.ts +4 -4
  8. package/esm/RootModel/PreferencesConfig.js +4 -4
  9. package/esm/RootModel/menuItems.d.ts +1 -2
  10. package/esm/RootModel/menuItems.js +3 -4
  11. package/esm/Session/BaseSession.d.ts +7 -5
  12. package/esm/Session/BaseSession.js +15 -5
  13. package/esm/Session/Connections.d.ts +3 -0
  14. package/esm/Session/Connections.js +3 -0
  15. package/esm/Session/DrawerWidgets.d.ts +2 -0
  16. package/esm/Session/DrawerWidgets.js +2 -0
  17. package/esm/Session/MultipleViews.d.ts +122 -96
  18. package/esm/Session/MultipleViews.js +5 -3
  19. package/esm/Session/Preferences.d.ts +122 -97
  20. package/esm/Session/Preferences.js +5 -4
  21. package/esm/Session/ReferenceManagement.d.ts +2 -0
  22. package/esm/Session/ReferenceManagement.js +2 -0
  23. package/esm/Session/SessionTracks.d.ts +119 -93
  24. package/esm/Session/SessionTracks.js +2 -0
  25. package/esm/Session/Themes.d.ts +7 -5
  26. package/esm/Session/Themes.js +15 -10
  27. package/esm/Session/TrackMenu.d.ts +4 -8
  28. package/esm/Session/TrackMenu.js +13 -7
  29. package/esm/Session/TrackMenuSessionMixin.js +7 -3
  30. package/esm/Session/Tracks.d.ts +120 -93
  31. package/esm/Session/Tracks.js +3 -0
  32. package/esm/Session/pluginExtraTrackItems.d.ts +2 -3
  33. package/esm/Session/pluginExtraTrackItems.js +1 -1
  34. package/esm/sessionMigrations/index.js +2 -2
  35. package/esm/siblingCast.d.ts +6 -0
  36. package/esm/siblingCast.js +7 -0
  37. package/esm/ui/AboutDialog.d.ts +3 -2
  38. package/esm/ui/AboutDialog.js +4 -2
  39. package/esm/ui/DescriptionPanel.js +4 -4
  40. package/esm/ui/Drawer.js +11 -15
  41. package/esm/ui/HeaderButtons.d.ts +1 -1
  42. package/esm/ui/HeaderButtons.js +3 -2
  43. package/esm/ui/PreferenceCheckbox.d.ts +3 -2
  44. package/esm/ui/PreferenceCheckbox.js +4 -2
  45. package/esm/ui/WidgetHeading.d.ts +2 -2
  46. package/esm/ui/WidgetHeading.js +3 -2
  47. package/package.json +6 -6
package/esm/Session/SessionTracks.d.ts CHANGED
@@ -11,6 +11,8 @@ export interface EditableTrackConfig {
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  }
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  /**
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  * #stateModel SessionTracksManagerSessionMixin
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+ * Adds session tracks to a session, and stores the user's edits to any track
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+ * as a delta against its base config.
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  */
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  export declare function SessionTracksManagerSessionMixin(pluginManager: PluginManager): import("@jbrowse/mobx-state-tree").IModelType<Omit<Omit<Omit<{
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  id: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").ISimpleType<string>, [undefined]>;
@@ -63,13 +65,13 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
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  }, {
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  error: unknown;
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  loadingP: Promise<void> | undefined;
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- adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
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+ adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases>>;
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  regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
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- refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
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+ refNameAliases: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases | undefined;
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  canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
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  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
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  loadedGeneticCodes: Record<string, number> | undefined;
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- lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
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+ lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases | undefined;
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  statusMessage: string | undefined;
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  statusProgress: number | undefined;
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  statusSource: string | undefined;
@@ -88,7 +90,7 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
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  setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
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  setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
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  } & {
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- setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
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+ setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameMaps & {
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  regions: import("@jbrowse/core/util").Region[];
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  cytobands: import("@jbrowse/core/util").Feature[];
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  geneticCodes: Record<string, number>;
@@ -119,11 +121,12 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
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  getCanonicalRefName2(refName: string): string;
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  isValidRefName(refName: string): boolean;
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  } & {
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+ isCircularRefName(refName: string): boolean;
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  getRefNamePosition(refName: string): number | undefined;
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  getAliasesForRefName(refName: string): string[];
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  getRefNameMapForAdapter(adapterConf: {
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  [x: string]: unknown;
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- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
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+ }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases>;
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  getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
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  }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
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  }, {
@@ -144,13 +147,13 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
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  }> & {
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  error: unknown;
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  loadingP: Promise<void> | undefined;
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- adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
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+ adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases>>;
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  regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
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- refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
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+ refNameAliases: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases | undefined;
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  canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
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  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
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  loadedGeneticCodes: Record<string, number> | undefined;
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- lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
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+ lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases | undefined;
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  statusMessage: string | undefined;
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  statusProgress: number | undefined;
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  statusSource: string | undefined;
@@ -169,7 +172,7 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
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  setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
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  setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
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  } & {
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- setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
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+ setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameMaps & {
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  regions: import("@jbrowse/core/util").Region[];
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  cytobands: import("@jbrowse/core/util").Feature[];
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  geneticCodes: Record<string, number>;
@@ -200,24 +203,25 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
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  getCanonicalRefName2(refName: string): string;
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  isValidRefName(refName: string): boolean;
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  } & {
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+ isCircularRefName(refName: string): boolean;
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  getRefNamePosition(refName: string): number | undefined;
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  getAliasesForRefName(refName: string): string[];
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  getRefNameMapForAdapter(adapterConf: {
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  [x: string]: unknown;
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- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
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+ }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases>;
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  getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
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  } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IModelType<{
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  configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<IAnyType>>;
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  }, {
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  error: unknown;
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  loadingP: Promise<void> | undefined;
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- adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
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+ adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases>>;
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  regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
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- refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
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+ refNameAliases: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases | undefined;
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  canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
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  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
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  loadedGeneticCodes: Record<string, number> | undefined;
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- lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
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+ lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases | undefined;
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  statusMessage: string | undefined;
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  statusProgress: number | undefined;
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  statusSource: string | undefined;
@@ -236,7 +240,7 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
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  setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
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  setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
238
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  } & {
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- setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
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+ setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameMaps & {
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  regions: import("@jbrowse/core/util").Region[];
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  cytobands: import("@jbrowse/core/util").Feature[];
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  geneticCodes: Record<string, number>;
@@ -267,11 +271,12 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
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  getCanonicalRefName2(refName: string): string;
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  isValidRefName(refName: string): boolean;
269
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  } & {
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+ isCircularRefName(refName: string): boolean;
270
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  getRefNamePosition(refName: string): number | undefined;
271
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  getAliasesForRefName(refName: string): string[];
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  getRefNameMapForAdapter(adapterConf: {
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  [x: string]: unknown;
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- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
279
+ }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases>;
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  getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
276
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  }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>) | undefined;
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  has(asmName: string): boolean;
@@ -280,13 +285,13 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
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  }> & {
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  error: unknown;
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  loadingP: Promise<void> | undefined;
283
- adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
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+ adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases>>;
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  regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
285
- refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
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+ refNameAliases: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases | undefined;
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  canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
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  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
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  loadedGeneticCodes: Record<string, number> | undefined;
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- lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
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+ lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases | undefined;
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  statusMessage: string | undefined;
291
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  statusProgress: number | undefined;
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  statusSource: string | undefined;
@@ -305,7 +310,7 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
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  setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
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  setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
307
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  } & {
308
- setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
313
+ setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameMaps & {
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  regions: import("@jbrowse/core/util").Region[];
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  cytobands: import("@jbrowse/core/util").Feature[];
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  geneticCodes: Record<string, number>;
@@ -336,24 +341,25 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
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  getCanonicalRefName2(refName: string): string;
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  isValidRefName(refName: string): boolean;
338
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  } & {
344
+ isCircularRefName(refName: string): boolean;
339
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  getRefNamePosition(refName: string): number | undefined;
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  getAliasesForRefName(refName: string): string[];
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  getRefNameMapForAdapter(adapterConf: {
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  [x: string]: unknown;
343
- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
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+ }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases>;
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  getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
345
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  } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IModelType<{
346
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  configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<IAnyType>>;
347
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  }, {
348
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  error: unknown;
349
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  loadingP: Promise<void> | undefined;
350
- adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
356
+ adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases>>;
351
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  regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
352
- refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
358
+ refNameAliases: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases | undefined;
353
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  canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
354
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  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
355
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  loadedGeneticCodes: Record<string, number> | undefined;
356
- lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
362
+ lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases | undefined;
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  statusMessage: string | undefined;
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  statusProgress: number | undefined;
359
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  statusSource: string | undefined;
@@ -372,7 +378,7 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
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  setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
373
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  setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
374
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  } & {
375
- setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
381
+ setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameMaps & {
376
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  regions: import("@jbrowse/core/util").Region[];
377
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  cytobands: import("@jbrowse/core/util").Feature[];
378
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  geneticCodes: Record<string, number>;
@@ -403,11 +409,12 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
403
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  getCanonicalRefName2(refName: string): string;
404
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  isValidRefName(refName: string): boolean;
405
411
  } & {
412
+ isCircularRefName(refName: string): boolean;
406
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  getRefNamePosition(refName: string): number | undefined;
407
414
  getAliasesForRefName(refName: string): string[];
408
415
  getRefNameMapForAdapter(adapterConf: {
409
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  [x: string]: unknown;
410
- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
417
+ }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases>;
411
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  getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
412
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  }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>) | undefined;
413
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  readonly assemblyNamesList: string[];
@@ -422,13 +429,13 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
422
429
  }> & {
423
430
  error: unknown;
424
431
  loadingP: Promise<void> | undefined;
425
- adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
432
+ adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases>>;
426
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  regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
427
- refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
434
+ refNameAliases: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases | undefined;
428
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  canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
429
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  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
430
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  loadedGeneticCodes: Record<string, number> | undefined;
431
- lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
438
+ lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases | undefined;
432
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  statusMessage: string | undefined;
433
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  statusProgress: number | undefined;
434
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  statusSource: string | undefined;
@@ -447,7 +454,7 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
447
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  setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
448
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  setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
449
456
  } & {
450
- setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
457
+ setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameMaps & {
451
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  regions: import("@jbrowse/core/util").Region[];
452
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  cytobands: import("@jbrowse/core/util").Feature[];
453
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  geneticCodes: Record<string, number>;
@@ -478,24 +485,25 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
478
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  getCanonicalRefName2(refName: string): string;
479
486
  isValidRefName(refName: string): boolean;
480
487
  } & {
488
+ isCircularRefName(refName: string): boolean;
481
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  getRefNamePosition(refName: string): number | undefined;
482
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  getAliasesForRefName(refName: string): string[];
483
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  getRefNameMapForAdapter(adapterConf: {
484
492
  [x: string]: unknown;
485
- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
493
+ }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases>;
486
494
  getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
487
495
  } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IModelType<{
488
496
  configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<IAnyType>>;
489
497
  }, {
490
498
  error: unknown;
491
499
  loadingP: Promise<void> | undefined;
492
- adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
500
+ adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases>>;
493
501
  regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
494
- refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
502
+ refNameAliases: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases | undefined;
495
503
  canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
496
504
  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
497
505
  loadedGeneticCodes: Record<string, number> | undefined;
498
- lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
506
+ lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases | undefined;
499
507
  statusMessage: string | undefined;
500
508
  statusProgress: number | undefined;
501
509
  statusSource: string | undefined;
@@ -514,7 +522,7 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
514
522
  setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
515
523
  setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
516
524
  } & {
517
- setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
525
+ setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameMaps & {
518
526
  regions: import("@jbrowse/core/util").Region[];
519
527
  cytobands: import("@jbrowse/core/util").Feature[];
520
528
  geneticCodes: Record<string, number>;
@@ -545,11 +553,12 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
545
553
  getCanonicalRefName2(refName: string): string;
546
554
  isValidRefName(refName: string): boolean;
547
555
  } & {
556
+ isCircularRefName(refName: string): boolean;
548
557
  getRefNamePosition(refName: string): number | undefined;
549
558
  getAliasesForRefName(refName: string): string[];
550
559
  getRefNameMapForAdapter(adapterConf: {
551
560
  [x: string]: unknown;
552
- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
561
+ }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases>;
553
562
  getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
554
563
  }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>) | undefined>;
555
564
  requireAssembly(assemblyName: string): Promise<import("@jbrowse/mobx-state-tree").ModelInstanceTypeProps<{
@@ -557,13 +566,13 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
557
566
  }> & {
558
567
  error: unknown;
559
568
  loadingP: Promise<void> | undefined;
560
- adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
569
+ adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases>>;
561
570
  regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
562
- refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
571
+ refNameAliases: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases | undefined;
563
572
  canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
564
573
  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
565
574
  loadedGeneticCodes: Record<string, number> | undefined;
566
- lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
575
+ lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases | undefined;
567
576
  statusMessage: string | undefined;
568
577
  statusProgress: number | undefined;
569
578
  statusSource: string | undefined;
@@ -582,7 +591,7 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
582
591
  setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
583
592
  setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
584
593
  } & {
585
- setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
594
+ setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameMaps & {
586
595
  regions: import("@jbrowse/core/util").Region[];
587
596
  cytobands: import("@jbrowse/core/util").Feature[];
588
597
  geneticCodes: Record<string, number>;
@@ -613,24 +622,25 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
613
622
  getCanonicalRefName2(refName: string): string;
614
623
  isValidRefName(refName: string): boolean;
615
624
  } & {
625
+ isCircularRefName(refName: string): boolean;
616
626
  getRefNamePosition(refName: string): number | undefined;
617
627
  getAliasesForRefName(refName: string): string[];
618
628
  getRefNameMapForAdapter(adapterConf: {
619
629
  [x: string]: unknown;
620
- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
630
+ }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases>;
621
631
  getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
622
632
  } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IModelType<{
623
633
  configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<IAnyType>>;
624
634
  }, {
625
635
  error: unknown;
626
636
  loadingP: Promise<void> | undefined;
627
- adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
637
+ adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases>>;
628
638
  regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
629
- refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
639
+ refNameAliases: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases | undefined;
630
640
  canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
631
641
  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
632
642
  loadedGeneticCodes: Record<string, number> | undefined;
633
- lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
643
+ lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases | undefined;
634
644
  statusMessage: string | undefined;
635
645
  statusProgress: number | undefined;
636
646
  statusSource: string | undefined;
@@ -649,7 +659,7 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
649
659
  setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
650
660
  setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
651
661
  } & {
652
- setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
662
+ setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameMaps & {
653
663
  regions: import("@jbrowse/core/util").Region[];
654
664
  cytobands: import("@jbrowse/core/util").Feature[];
655
665
  geneticCodes: Record<string, number>;
@@ -680,16 +690,17 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
680
690
  getCanonicalRefName2(refName: string): string;
681
691
  isValidRefName(refName: string): boolean;
682
692
  } & {
693
+ isCircularRefName(refName: string): boolean;
683
694
  getRefNamePosition(refName: string): number | undefined;
684
695
  getAliasesForRefName(refName: string): string[];
685
696
  getRefNameMapForAdapter(adapterConf: {
686
697
  [x: string]: unknown;
687
- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
698
+ }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases>;
688
699
  getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
689
700
  }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>>;
690
701
  getRefNameMapForAdapter(adapterConf: {
691
702
  [x: string]: unknown;
692
- }, assemblyName: string | undefined, opts: import("@jbrowse/core/assemblyManager").AssemblyBaseOpts): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
703
+ }, assemblyName: string | undefined, opts: import("@jbrowse/core/assemblyManager").AssemblyBaseOpts): Promise<import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases>;
693
704
  isValidRefName(refName: string, assemblyName: string): boolean;
694
705
  } & {
695
706
  afterAttach(): void;
@@ -702,8 +713,11 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
702
713
  error: unknown;
703
714
  textSearchManager: import("@jbrowse/core/TextSearch/TextSearchManager").default;
704
715
  pluginManager: PluginManager;
716
+ detachDisposers: (() => void)[];
705
717
  } & {
706
718
  setError(error: unknown): void;
719
+ addDetachDisposer(disposer: () => void): void;
720
+ detach(): void;
707
721
  setSession(sessionSnapshot?: import("@jbrowse/mobx-state-tree").SnapshotIn<IAnyType>): void;
708
722
  setDefaultSession(): void;
709
723
  setSessionPath(path: string): void;
@@ -718,13 +732,13 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
718
732
  }, {
719
733
  error: unknown;
720
734
  loadingP: Promise<void> | undefined;
721
- adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
735
+ adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases>>;
722
736
  regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
723
- refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
737
+ refNameAliases: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases | undefined;
724
738
  canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
725
739
  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
726
740
  loadedGeneticCodes: Record<string, number> | undefined;
727
- lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
741
+ lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases | undefined;
728
742
  statusMessage: string | undefined;
729
743
  statusProgress: number | undefined;
730
744
  statusSource: string | undefined;
@@ -743,7 +757,7 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
743
757
  setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
744
758
  setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
745
759
  } & {
746
- setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
760
+ setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameMaps & {
747
761
  regions: import("@jbrowse/core/util").Region[];
748
762
  cytobands: import("@jbrowse/core/util").Feature[];
749
763
  geneticCodes: Record<string, number>;
@@ -774,11 +788,12 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
774
788
  getCanonicalRefName2(refName: string): string;
775
789
  isValidRefName(refName: string): boolean;
776
790
  } & {
791
+ isCircularRefName(refName: string): boolean;
777
792
  getRefNamePosition(refName: string): number | undefined;
778
793
  getAliasesForRefName(refName: string): string[];
779
794
  getRefNameMapForAdapter(adapterConf: {
780
795
  [x: string]: unknown;
781
- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
796
+ }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases>;
782
797
  getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
783
798
  }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>;
784
799
  }, {
@@ -799,13 +814,13 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
799
814
  }> & {
800
815
  error: unknown;
801
816
  loadingP: Promise<void> | undefined;
802
- adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
817
+ adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases>>;
803
818
  regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
804
- refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
819
+ refNameAliases: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases | undefined;
805
820
  canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
806
821
  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
807
822
  loadedGeneticCodes: Record<string, number> | undefined;
808
- lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
823
+ lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases | undefined;
809
824
  statusMessage: string | undefined;
810
825
  statusProgress: number | undefined;
811
826
  statusSource: string | undefined;
@@ -824,7 +839,7 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
824
839
  setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
825
840
  setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
826
841
  } & {
827
- setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
842
+ setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameMaps & {
828
843
  regions: import("@jbrowse/core/util").Region[];
829
844
  cytobands: import("@jbrowse/core/util").Feature[];
830
845
  geneticCodes: Record<string, number>;
@@ -855,24 +870,25 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
855
870
  getCanonicalRefName2(refName: string): string;
856
871
  isValidRefName(refName: string): boolean;
857
872
  } & {
873
+ isCircularRefName(refName: string): boolean;
858
874
  getRefNamePosition(refName: string): number | undefined;
859
875
  getAliasesForRefName(refName: string): string[];
860
876
  getRefNameMapForAdapter(adapterConf: {
861
877
  [x: string]: unknown;
862
- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
878
+ }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases>;
863
879
  getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
864
880
  } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IModelType<{
865
881
  configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<IAnyType>>;
866
882
  }, {
867
883
  error: unknown;
868
884
  loadingP: Promise<void> | undefined;
869
- adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
885
+ adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases>>;
870
886
  regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
871
- refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
887
+ refNameAliases: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases | undefined;
872
888
  canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
873
889
  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
874
890
  loadedGeneticCodes: Record<string, number> | undefined;
875
- lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
891
+ lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases | undefined;
876
892
  statusMessage: string | undefined;
877
893
  statusProgress: number | undefined;
878
894
  statusSource: string | undefined;
@@ -891,7 +907,7 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
891
907
  setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
892
908
  setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
893
909
  } & {
894
- setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
910
+ setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameMaps & {
895
911
  regions: import("@jbrowse/core/util").Region[];
896
912
  cytobands: import("@jbrowse/core/util").Feature[];
897
913
  geneticCodes: Record<string, number>;
@@ -922,11 +938,12 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
922
938
  getCanonicalRefName2(refName: string): string;
923
939
  isValidRefName(refName: string): boolean;
924
940
  } & {
941
+ isCircularRefName(refName: string): boolean;
925
942
  getRefNamePosition(refName: string): number | undefined;
926
943
  getAliasesForRefName(refName: string): string[];
927
944
  getRefNameMapForAdapter(adapterConf: {
928
945
  [x: string]: unknown;
929
- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
946
+ }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases>;
930
947
  getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
931
948
  }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>) | undefined;
932
949
  has(asmName: string): boolean;
@@ -935,13 +952,13 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
935
952
  }> & {
936
953
  error: unknown;
937
954
  loadingP: Promise<void> | undefined;
938
- adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
955
+ adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases>>;
939
956
  regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
940
- refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
957
+ refNameAliases: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases | undefined;
941
958
  canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
942
959
  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
943
960
  loadedGeneticCodes: Record<string, number> | undefined;
944
- lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
961
+ lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases | undefined;
945
962
  statusMessage: string | undefined;
946
963
  statusProgress: number | undefined;
947
964
  statusSource: string | undefined;
@@ -960,7 +977,7 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
960
977
  setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
961
978
  setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
962
979
  } & {
963
- setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
980
+ setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameMaps & {
964
981
  regions: import("@jbrowse/core/util").Region[];
965
982
  cytobands: import("@jbrowse/core/util").Feature[];
966
983
  geneticCodes: Record<string, number>;
@@ -991,24 +1008,25 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
991
1008
  getCanonicalRefName2(refName: string): string;
992
1009
  isValidRefName(refName: string): boolean;
993
1010
  } & {
1011
+ isCircularRefName(refName: string): boolean;
994
1012
  getRefNamePosition(refName: string): number | undefined;
995
1013
  getAliasesForRefName(refName: string): string[];
996
1014
  getRefNameMapForAdapter(adapterConf: {
997
1015
  [x: string]: unknown;
998
- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
1016
+ }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases>;
999
1017
  getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
1000
1018
  } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IModelType<{
1001
1019
  configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<IAnyType>>;
1002
1020
  }, {
1003
1021
  error: unknown;
1004
1022
  loadingP: Promise<void> | undefined;
1005
- adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
1023
+ adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases>>;
1006
1024
  regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
1007
- refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
1025
+ refNameAliases: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases | undefined;
1008
1026
  canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
1009
1027
  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
1010
1028
  loadedGeneticCodes: Record<string, number> | undefined;
1011
- lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
1029
+ lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases | undefined;
1012
1030
  statusMessage: string | undefined;
1013
1031
  statusProgress: number | undefined;
1014
1032
  statusSource: string | undefined;
@@ -1027,7 +1045,7 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
1027
1045
  setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
1028
1046
  setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
1029
1047
  } & {
1030
- setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
1048
+ setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameMaps & {
1031
1049
  regions: import("@jbrowse/core/util").Region[];
1032
1050
  cytobands: import("@jbrowse/core/util").Feature[];
1033
1051
  geneticCodes: Record<string, number>;
@@ -1058,11 +1076,12 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
1058
1076
  getCanonicalRefName2(refName: string): string;
1059
1077
  isValidRefName(refName: string): boolean;
1060
1078
  } & {
1079
+ isCircularRefName(refName: string): boolean;
1061
1080
  getRefNamePosition(refName: string): number | undefined;
1062
1081
  getAliasesForRefName(refName: string): string[];
1063
1082
  getRefNameMapForAdapter(adapterConf: {
1064
1083
  [x: string]: unknown;
1065
- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
1084
+ }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases>;
1066
1085
  getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
1067
1086
  }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>) | undefined;
1068
1087
  readonly assemblyNamesList: string[];
@@ -1077,13 +1096,13 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
1077
1096
  }> & {
1078
1097
  error: unknown;
1079
1098
  loadingP: Promise<void> | undefined;
1080
- adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
1099
+ adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases>>;
1081
1100
  regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
1082
- refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
1101
+ refNameAliases: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases | undefined;
1083
1102
  canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
1084
1103
  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
1085
1104
  loadedGeneticCodes: Record<string, number> | undefined;
1086
- lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
1105
+ lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases | undefined;
1087
1106
  statusMessage: string | undefined;
1088
1107
  statusProgress: number | undefined;
1089
1108
  statusSource: string | undefined;
@@ -1102,7 +1121,7 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
1102
1121
  setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
1103
1122
  setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
1104
1123
  } & {
1105
- setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
1124
+ setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameMaps & {
1106
1125
  regions: import("@jbrowse/core/util").Region[];
1107
1126
  cytobands: import("@jbrowse/core/util").Feature[];
1108
1127
  geneticCodes: Record<string, number>;
@@ -1133,24 +1152,25 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
1133
1152
  getCanonicalRefName2(refName: string): string;
1134
1153
  isValidRefName(refName: string): boolean;
1135
1154
  } & {
1155
+ isCircularRefName(refName: string): boolean;
1136
1156
  getRefNamePosition(refName: string): number | undefined;
1137
1157
  getAliasesForRefName(refName: string): string[];
1138
1158
  getRefNameMapForAdapter(adapterConf: {
1139
1159
  [x: string]: unknown;
1140
- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
1160
+ }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases>;
1141
1161
  getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
1142
1162
  } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IModelType<{
1143
1163
  configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<IAnyType>>;
1144
1164
  }, {
1145
1165
  error: unknown;
1146
1166
  loadingP: Promise<void> | undefined;
1147
- adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
1167
+ adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases>>;
1148
1168
  regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
1149
- refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
1169
+ refNameAliases: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases | undefined;
1150
1170
  canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
1151
1171
  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
1152
1172
  loadedGeneticCodes: Record<string, number> | undefined;
1153
- lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
1173
+ lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases | undefined;
1154
1174
  statusMessage: string | undefined;
1155
1175
  statusProgress: number | undefined;
1156
1176
  statusSource: string | undefined;
@@ -1169,7 +1189,7 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
1169
1189
  setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
1170
1190
  setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
1171
1191
  } & {
1172
- setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
1192
+ setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameMaps & {
1173
1193
  regions: import("@jbrowse/core/util").Region[];
1174
1194
  cytobands: import("@jbrowse/core/util").Feature[];
1175
1195
  geneticCodes: Record<string, number>;
@@ -1200,11 +1220,12 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
1200
1220
  getCanonicalRefName2(refName: string): string;
1201
1221
  isValidRefName(refName: string): boolean;
1202
1222
  } & {
1223
+ isCircularRefName(refName: string): boolean;
1203
1224
  getRefNamePosition(refName: string): number | undefined;
1204
1225
  getAliasesForRefName(refName: string): string[];
1205
1226
  getRefNameMapForAdapter(adapterConf: {
1206
1227
  [x: string]: unknown;
1207
- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
1228
+ }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases>;
1208
1229
  getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
1209
1230
  }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>) | undefined>;
1210
1231
  requireAssembly(assemblyName: string): Promise<import("@jbrowse/mobx-state-tree").ModelInstanceTypeProps<{
@@ -1212,13 +1233,13 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
1212
1233
  }> & {
1213
1234
  error: unknown;
1214
1235
  loadingP: Promise<void> | undefined;
1215
- adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
1236
+ adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases>>;
1216
1237
  regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
1217
- refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
1238
+ refNameAliases: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases | undefined;
1218
1239
  canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
1219
1240
  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
1220
1241
  loadedGeneticCodes: Record<string, number> | undefined;
1221
- lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
1242
+ lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases | undefined;
1222
1243
  statusMessage: string | undefined;
1223
1244
  statusProgress: number | undefined;
1224
1245
  statusSource: string | undefined;
@@ -1237,7 +1258,7 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
1237
1258
  setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
1238
1259
  setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
1239
1260
  } & {
1240
- setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
1261
+ setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameMaps & {
1241
1262
  regions: import("@jbrowse/core/util").Region[];
1242
1263
  cytobands: import("@jbrowse/core/util").Feature[];
1243
1264
  geneticCodes: Record<string, number>;
@@ -1268,24 +1289,25 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
1268
1289
  getCanonicalRefName2(refName: string): string;
1269
1290
  isValidRefName(refName: string): boolean;
1270
1291
  } & {
1292
+ isCircularRefName(refName: string): boolean;
1271
1293
  getRefNamePosition(refName: string): number | undefined;
1272
1294
  getAliasesForRefName(refName: string): string[];
1273
1295
  getRefNameMapForAdapter(adapterConf: {
1274
1296
  [x: string]: unknown;
1275
- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
1297
+ }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases>;
1276
1298
  getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
1277
1299
  } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IModelType<{
1278
1300
  configuration: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IReferenceType<IAnyType>>;
1279
1301
  }, {
1280
1302
  error: unknown;
1281
1303
  loadingP: Promise<void> | undefined;
1282
- adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>>;
1304
+ adapterLoads: import("@jbrowse/quick-lru").default<string, Promise<import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases>>;
1283
1305
  regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
1284
- refNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
1306
+ refNameAliases: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases | undefined;
1285
1307
  canonicalToSeqAdapterRefNames: Record<string, string> | undefined;
1286
1308
  cytobands: import("@jbrowse/core/util").Feature[] | undefined;
1287
1309
  loadedGeneticCodes: Record<string, number> | undefined;
1288
- lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/assembly").RefNameAliases | undefined;
1310
+ lowerCaseRefNameAliases: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases | undefined;
1289
1311
  statusMessage: string | undefined;
1290
1312
  statusProgress: number | undefined;
1291
1313
  statusSource: string | undefined;
@@ -1304,7 +1326,7 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
1304
1326
  setStatus(status?: import("@jbrowse/core/util").RpcStatus): void;
1305
1327
  setRefNameMismatch(adapterCacheKey: string, mismatch: import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch): void;
1306
1328
  } & {
1307
- setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/assembly").RefNameMaps & {
1329
+ setLoaded({ regions, refNameAliases, lowerCaseRefNameAliases, canonicalToSeqAdapterRefNames, cytobands, geneticCodes }: import("@jbrowse/core/assemblyManager/refNameMaps").RefNameMaps & {
1308
1330
  regions: import("@jbrowse/core/util").Region[];
1309
1331
  cytobands: import("@jbrowse/core/util").Feature[];
1310
1332
  geneticCodes: Record<string, number>;
@@ -1335,16 +1357,17 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
1335
1357
  getCanonicalRefName2(refName: string): string;
1336
1358
  isValidRefName(refName: string): boolean;
1337
1359
  } & {
1360
+ isCircularRefName(refName: string): boolean;
1338
1361
  getRefNamePosition(refName: string): number | undefined;
1339
1362
  getAliasesForRefName(refName: string): string[];
1340
1363
  getRefNameMapForAdapter(adapterConf: {
1341
1364
  [x: string]: unknown;
1342
- }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
1365
+ }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases>;
1343
1366
  getRefNameMismatch(adapterCacheKey: string): import("@jbrowse/core/assemblyManager/assembly").RefNameMismatch | undefined;
1344
1367
  }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>>>;
1345
1368
  getRefNameMapForAdapter(adapterConf: {
1346
1369
  [x: string]: unknown;
1347
- }, assemblyName: string | undefined, opts: import("@jbrowse/core/assemblyManager").AssemblyBaseOpts): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameAliases>;
1370
+ }, assemblyName: string | undefined, opts: import("@jbrowse/core/assemblyManager").AssemblyBaseOpts): Promise<import("@jbrowse/core/assemblyManager/refNameMaps").RefNameAliases>;
1348
1371
  isValidRefName(refName: string, assemblyName: string): boolean;
1349
1372
  } & {
1350
1373
  afterAttach(): void;
@@ -1357,8 +1380,11 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
1357
1380
  error: unknown;
1358
1381
  textSearchManager: import("@jbrowse/core/TextSearch/TextSearchManager").default;
1359
1382
  pluginManager: PluginManager;
1383
+ detachDisposers: (() => void)[];
1360
1384
  } & {
1361
1385
  setError(error: unknown): void;
1386
+ addDetachDisposer(disposer: () => void): void;
1387
+ detach(): void;
1362
1388
  setSession(sessionSnapshot?: import("@jbrowse/mobx-state-tree").SnapshotIn<IAnyType>): void;
1363
1389
  setDefaultSession(): void;
1364
1390
  setSessionPath(path: string): void;
@@ -1400,7 +1426,7 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
1400
1426
  setName(str: string): void;
1401
1427
  setFocusedViewId(viewId: string | undefined): void;
1402
1428
  removeActiveDialog(): void;
1403
- queueDialog(doneCallback: (doneCallback: () => void) => [import("@jbrowse/core/util").DialogComponentType, Record<string, unknown>]): void;
1429
+ queueDialog<T extends import("@jbrowse/core/util").DialogComponentType>(callback: (doneCallback: () => void) => [T, import("react").ComponentProps<T>]): void;
1404
1430
  removeDialog(entry: [import("@jbrowse/core/util").DialogComponentType, Record<string, unknown>]): void;
1405
1431
  } & {
1406
1432
  snackbarMessages: import("mobx").IObservableArray<import("@jbrowse/core/ui/SnackbarModel").SnackbarMessage>;