@jbrowse/product-core 2.13.1 → 2.15.0
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.
- package/dist/RootModel/BaseRootModel.d.ts +110 -84
- package/dist/RootModel/InternetAccounts.d.ts +1 -1
- package/dist/RootModel/InternetAccounts.js +1 -2
- package/dist/Session/BaseSession.d.ts +6 -2
- package/dist/Session/Connections.d.ts +71 -11
- package/dist/Session/Connections.js +3 -1
- package/dist/Session/DialogQueue.d.ts +1 -1
- package/dist/Session/MultipleViews.d.ts +354 -266
- package/dist/Session/ReferenceManagement.d.ts +1 -1
- package/dist/Session/ReferenceManagement.js +6 -2
- package/dist/Session/SessionTracks.d.ts +344 -258
- package/dist/Session/Tracks.d.ts +343 -255
- package/dist/Session/Tracks.js +3 -1
- package/dist/ui/AboutDialogContents.js +9 -3
- package/dist/ui/FileInfoPanel.d.ts +1 -1
- package/dist/ui/FileInfoPanel.js +1 -1
- package/dist/ui/RefNameInfoDialog.js +5 -3
- package/esm/RootModel/BaseRootModel.d.ts +110 -84
- package/esm/RootModel/InternetAccounts.d.ts +1 -1
- package/esm/RootModel/InternetAccounts.js +1 -2
- package/esm/Session/BaseSession.d.ts +6 -2
- package/esm/Session/Connections.d.ts +71 -11
- package/esm/Session/Connections.js +3 -1
- package/esm/Session/DialogQueue.d.ts +1 -1
- package/esm/Session/MultipleViews.d.ts +354 -266
- package/esm/Session/ReferenceManagement.d.ts +1 -1
- package/esm/Session/ReferenceManagement.js +6 -2
- package/esm/Session/SessionTracks.d.ts +344 -258
- package/esm/Session/Tracks.d.ts +343 -255
- package/esm/Session/Tracks.js +3 -1
- package/esm/ui/AboutDialogContents.js +9 -3
- package/esm/ui/FileInfoPanel.d.ts +1 -1
- package/esm/ui/FileInfoPanel.js +1 -1
- package/esm/ui/RefNameInfoDialog.js +5 -3
- package/package.json +6 -6
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@@ -26,16 +26,16 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
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configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
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volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
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cytobands: import("@jbrowse/core/util").Feature[] | undefined;
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getConf(arg: string): any;
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getRefNameColor(refName: string): string | undefined;
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isValidRefName(refName: string): boolean;
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setLoaded({
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regions: import("@jbrowse/core/util").Region[];
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setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
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setLoadingP(p?: Promise<void>): void;
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getRefNameMapForAdapter(adapterConf: {
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}, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
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}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>> & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IArrayType<import("mobx-state-tree").IModelType<{
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configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
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getRefNameColor(refName: string): string | undefined;
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isValidRefName(refName: string): boolean;
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cytobands: import("@jbrowse/core/util").Feature[];
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setRegions(regions: import("@jbrowse/core/util").Region[]): void;
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setRefNameAliases(aliases: {
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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;
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getRefNameMapForAdapter(adapterConf: {
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}, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
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}, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
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}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>>;
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} & import("mobx-state-tree/dist/internal").NonEmptyObject & {
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readonly assemblyNameMap: Record<string,
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readonly assemblyNameMap: Record<string, {
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configuration: any;
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} & import("mobx-state-tree/dist/internal").NonEmptyObject & {
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cytobands: import("@jbrowse/core/util").Feature[] | undefined;
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getRefNameColor(refName: string): string | undefined;
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isValidRefName(refName: string): boolean;
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@@ -439,13 +463,17 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
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setLoaded({
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};
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cytobands: import("@jbrowse/core/util").Feature[];
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}): void;
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|
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|
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}, lcAliases: {
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[x: string]: string | undefined;
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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;
|
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@@ -458,27 +486,27 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
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|
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|
[x: string]: unknown;
|
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|
}, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
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|
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|
}>;
|
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|
getReverseRefNameMapForAdapter(adapterConf: {
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|
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|
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|
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|
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|
+
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|
}>;
|
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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<import("mobx-state-tree").IAnyType>>;
|
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|
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|
error: unknown;
|
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|
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loaded: boolean;
|
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|
loadingP: Promise<void> | undefined;
|
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|
volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
|
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|
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|
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|
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[x: string]: string
|
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|
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} | undefined;
|
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|
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lowerCaseRefNameAliases: {
|
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|
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[x: string]: string | undefined;
|
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|
+
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|
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|
} | undefined;
|
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|
cytobands: import("@jbrowse/core/util").Feature[] | undefined;
|
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|
+
} & {
|
|
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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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|
getConf(arg: string): any;
|
|
484
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|
} & {
|
|
@@ -501,13 +529,17 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
501
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|
getRefNameColor(refName: string): string | undefined;
|
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530
|
isValidRefName(refName: string): boolean;
|
|
503
531
|
} & {
|
|
504
|
-
setLoaded({
|
|
532
|
+
setLoaded({ regions, refNameAliases, cytobands, }: {
|
|
533
|
+
regions: import("@jbrowse/core/util").Region[];
|
|
534
|
+
refNameAliases: {
|
|
535
|
+
[x: string]: string;
|
|
536
|
+
};
|
|
537
|
+
cytobands: import("@jbrowse/core/util").Feature[];
|
|
538
|
+
}): void;
|
|
505
539
|
setError(e: unknown): void;
|
|
506
540
|
setRegions(regions: import("@jbrowse/core/util").Region[]): void;
|
|
507
541
|
setRefNameAliases(aliases: {
|
|
508
|
-
[x: string]: string
|
|
509
|
-
}, lcAliases: {
|
|
510
|
-
[x: string]: string | undefined;
|
|
542
|
+
[x: string]: string;
|
|
511
543
|
}): void;
|
|
512
544
|
setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
|
|
513
545
|
setLoadingP(p?: Promise<void>): void;
|
|
@@ -520,12 +552,12 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
520
552
|
getRefNameMapForAdapter(adapterConf: {
|
|
521
553
|
[x: string]: unknown;
|
|
522
554
|
}, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
|
|
523
|
-
[x: string]: string
|
|
555
|
+
[x: string]: string;
|
|
524
556
|
}>;
|
|
525
557
|
getReverseRefNameMapForAdapter(adapterConf: {
|
|
526
558
|
[x: string]: unknown;
|
|
527
559
|
}, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
|
|
528
|
-
[x: string]: string
|
|
560
|
+
[x: string]: string;
|
|
529
561
|
}>;
|
|
530
562
|
}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>) | undefined>;
|
|
531
563
|
getRefNameMapForAdapter(adapterConf: {
|
|
@@ -534,7 +566,7 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
534
566
|
signal?: AbortSignal;
|
|
535
567
|
sessionId: string;
|
|
536
568
|
}): Promise<{
|
|
537
|
-
[x: string]: string
|
|
569
|
+
[x: string]: string;
|
|
538
570
|
} | undefined>;
|
|
539
571
|
getReverseRefNameMapForAdapter(adapterConf: {
|
|
540
572
|
[x: string]: unknown;
|
|
@@ -542,7 +574,7 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
542
574
|
signal?: AbortSignal;
|
|
543
575
|
sessionId: string;
|
|
544
576
|
}): Promise<{
|
|
545
|
-
[x: string]: string
|
|
577
|
+
[x: string]: string;
|
|
546
578
|
} | undefined>;
|
|
547
579
|
isValidRefName(refName: string, assemblyName: string): boolean;
|
|
548
580
|
} & {
|
|
@@ -555,16 +587,16 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
555
587
|
configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
|
|
556
588
|
}, {
|
|
557
589
|
error: unknown;
|
|
558
|
-
loaded: boolean;
|
|
559
590
|
loadingP: Promise<void> | undefined;
|
|
560
591
|
volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
|
|
561
592
|
refNameAliases: {
|
|
562
|
-
[x: string]: string
|
|
563
|
-
} | undefined;
|
|
564
|
-
lowerCaseRefNameAliases: {
|
|
565
|
-
[x: string]: string | undefined;
|
|
593
|
+
[x: string]: string;
|
|
566
594
|
} | undefined;
|
|
567
595
|
cytobands: import("@jbrowse/core/util").Feature[] | undefined;
|
|
596
|
+
} & {
|
|
597
|
+
readonly lowerCaseRefNameAliases: {
|
|
598
|
+
[k: string]: string;
|
|
599
|
+
} | undefined;
|
|
568
600
|
} & {
|
|
569
601
|
getConf(arg: string): any;
|
|
570
602
|
} & {
|
|
@@ -587,13 +619,17 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
587
619
|
getRefNameColor(refName: string): string | undefined;
|
|
588
620
|
isValidRefName(refName: string): boolean;
|
|
589
621
|
} & {
|
|
590
|
-
setLoaded({
|
|
622
|
+
setLoaded({ regions, refNameAliases, cytobands, }: {
|
|
623
|
+
regions: import("@jbrowse/core/util").Region[];
|
|
624
|
+
refNameAliases: {
|
|
625
|
+
[x: string]: string;
|
|
626
|
+
};
|
|
627
|
+
cytobands: import("@jbrowse/core/util").Feature[];
|
|
628
|
+
}): void;
|
|
591
629
|
setError(e: unknown): void;
|
|
592
630
|
setRegions(regions: import("@jbrowse/core/util").Region[]): void;
|
|
593
631
|
setRefNameAliases(aliases: {
|
|
594
|
-
[x: string]: string
|
|
595
|
-
}, lcAliases: {
|
|
596
|
-
[x: string]: string | undefined;
|
|
632
|
+
[x: string]: string;
|
|
597
633
|
}): void;
|
|
598
634
|
setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
|
|
599
635
|
setLoadingP(p?: Promise<void>): void;
|
|
@@ -606,29 +642,29 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
606
642
|
getRefNameMapForAdapter(adapterConf: {
|
|
607
643
|
[x: string]: unknown;
|
|
608
644
|
}, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
|
|
609
|
-
[x: string]: string
|
|
645
|
+
[x: string]: string;
|
|
610
646
|
}>;
|
|
611
647
|
getReverseRefNameMapForAdapter(adapterConf: {
|
|
612
648
|
[x: string]: unknown;
|
|
613
649
|
}, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
|
|
614
|
-
[x: string]: string
|
|
650
|
+
[x: string]: string;
|
|
615
651
|
}>;
|
|
616
652
|
}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
|
|
617
653
|
}, {
|
|
618
|
-
readonly assemblyNameMap: Record<string,
|
|
654
|
+
readonly assemblyNameMap: Record<string, {
|
|
619
655
|
configuration: any;
|
|
620
656
|
} & import("mobx-state-tree/dist/internal").NonEmptyObject & {
|
|
621
657
|
error: unknown;
|
|
622
|
-
loaded: boolean;
|
|
623
658
|
loadingP: Promise<void> | undefined;
|
|
624
659
|
volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
|
|
625
660
|
refNameAliases: {
|
|
626
|
-
[x: string]: string
|
|
627
|
-
} | undefined;
|
|
628
|
-
lowerCaseRefNameAliases: {
|
|
629
|
-
[x: string]: string | undefined;
|
|
661
|
+
[x: string]: string;
|
|
630
662
|
} | undefined;
|
|
631
663
|
cytobands: import("@jbrowse/core/util").Feature[] | undefined;
|
|
664
|
+
} & {
|
|
665
|
+
readonly lowerCaseRefNameAliases: {
|
|
666
|
+
[k: string]: string;
|
|
667
|
+
} | undefined;
|
|
632
668
|
} & {
|
|
633
669
|
getConf(arg: string): any;
|
|
634
670
|
} & {
|
|
@@ -651,13 +687,17 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
651
687
|
getRefNameColor(refName: string): string | undefined;
|
|
652
688
|
isValidRefName(refName: string): boolean;
|
|
653
689
|
} & {
|
|
654
|
-
setLoaded({
|
|
690
|
+
setLoaded({ regions, refNameAliases, cytobands, }: {
|
|
691
|
+
regions: import("@jbrowse/core/util").Region[];
|
|
692
|
+
refNameAliases: {
|
|
693
|
+
[x: string]: string;
|
|
694
|
+
};
|
|
695
|
+
cytobands: import("@jbrowse/core/util").Feature[];
|
|
696
|
+
}): void;
|
|
655
697
|
setError(e: unknown): void;
|
|
656
698
|
setRegions(regions: import("@jbrowse/core/util").Region[]): void;
|
|
657
699
|
setRefNameAliases(aliases: {
|
|
658
|
-
[x: string]: string
|
|
659
|
-
}, lcAliases: {
|
|
660
|
-
[x: string]: string | undefined;
|
|
700
|
+
[x: string]: string;
|
|
661
701
|
}): void;
|
|
662
702
|
setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
|
|
663
703
|
setLoadingP(p?: Promise<void>): void;
|
|
@@ -670,27 +710,27 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
670
710
|
getRefNameMapForAdapter(adapterConf: {
|
|
671
711
|
[x: string]: unknown;
|
|
672
712
|
}, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
|
|
673
|
-
[x: string]: string
|
|
713
|
+
[x: string]: string;
|
|
674
714
|
}>;
|
|
675
715
|
getReverseRefNameMapForAdapter(adapterConf: {
|
|
676
716
|
[x: string]: unknown;
|
|
677
717
|
}, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
|
|
678
|
-
[x: string]: string
|
|
718
|
+
[x: string]: string;
|
|
679
719
|
}>;
|
|
680
720
|
} & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
|
|
681
721
|
configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
|
|
682
722
|
}, {
|
|
683
723
|
error: unknown;
|
|
684
|
-
loaded: boolean;
|
|
685
724
|
loadingP: Promise<void> | undefined;
|
|
686
725
|
volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
|
|
687
726
|
refNameAliases: {
|
|
688
|
-
[x: string]: string
|
|
689
|
-
} | undefined;
|
|
690
|
-
lowerCaseRefNameAliases: {
|
|
691
|
-
[x: string]: string | undefined;
|
|
727
|
+
[x: string]: string;
|
|
692
728
|
} | undefined;
|
|
693
729
|
cytobands: import("@jbrowse/core/util").Feature[] | undefined;
|
|
730
|
+
} & {
|
|
731
|
+
readonly lowerCaseRefNameAliases: {
|
|
732
|
+
[k: string]: string;
|
|
733
|
+
} | undefined;
|
|
694
734
|
} & {
|
|
695
735
|
getConf(arg: string): any;
|
|
696
736
|
} & {
|
|
@@ -713,13 +753,17 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
713
753
|
getRefNameColor(refName: string): string | undefined;
|
|
714
754
|
isValidRefName(refName: string): boolean;
|
|
715
755
|
} & {
|
|
716
|
-
setLoaded({
|
|
756
|
+
setLoaded({ regions, refNameAliases, cytobands, }: {
|
|
757
|
+
regions: import("@jbrowse/core/util").Region[];
|
|
758
|
+
refNameAliases: {
|
|
759
|
+
[x: string]: string;
|
|
760
|
+
};
|
|
761
|
+
cytobands: import("@jbrowse/core/util").Feature[];
|
|
762
|
+
}): void;
|
|
717
763
|
setError(e: unknown): void;
|
|
718
764
|
setRegions(regions: import("@jbrowse/core/util").Region[]): void;
|
|
719
765
|
setRefNameAliases(aliases: {
|
|
720
|
-
[x: string]: string
|
|
721
|
-
}, lcAliases: {
|
|
722
|
-
[x: string]: string | undefined;
|
|
766
|
+
[x: string]: string;
|
|
723
767
|
}): void;
|
|
724
768
|
setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
|
|
725
769
|
setLoadingP(p?: Promise<void>): void;
|
|
@@ -732,29 +776,29 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
732
776
|
getRefNameMapForAdapter(adapterConf: {
|
|
733
777
|
[x: string]: unknown;
|
|
734
778
|
}, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
|
|
735
|
-
[x: string]: string
|
|
779
|
+
[x: string]: string;
|
|
736
780
|
}>;
|
|
737
781
|
getReverseRefNameMapForAdapter(adapterConf: {
|
|
738
782
|
[x: string]: unknown;
|
|
739
783
|
}, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
|
|
740
|
-
[x: string]: string
|
|
784
|
+
[x: string]: string;
|
|
741
785
|
}>;
|
|
742
|
-
}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized
|
|
786
|
+
}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>>;
|
|
743
787
|
} & {
|
|
744
788
|
get(asmName: string): ({
|
|
745
789
|
configuration: any;
|
|
746
790
|
} & import("mobx-state-tree/dist/internal").NonEmptyObject & {
|
|
747
791
|
error: unknown;
|
|
748
|
-
loaded: boolean;
|
|
749
792
|
loadingP: Promise<void> | undefined;
|
|
750
793
|
volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
|
|
751
794
|
refNameAliases: {
|
|
752
|
-
[x: string]: string
|
|
753
|
-
} | undefined;
|
|
754
|
-
lowerCaseRefNameAliases: {
|
|
755
|
-
[x: string]: string | undefined;
|
|
795
|
+
[x: string]: string;
|
|
756
796
|
} | undefined;
|
|
757
797
|
cytobands: import("@jbrowse/core/util").Feature[] | undefined;
|
|
798
|
+
} & {
|
|
799
|
+
readonly lowerCaseRefNameAliases: {
|
|
800
|
+
[k: string]: string;
|
|
801
|
+
} | undefined;
|
|
758
802
|
} & {
|
|
759
803
|
getConf(arg: string): any;
|
|
760
804
|
} & {
|
|
@@ -777,13 +821,17 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
777
821
|
getRefNameColor(refName: string): string | undefined;
|
|
778
822
|
isValidRefName(refName: string): boolean;
|
|
779
823
|
} & {
|
|
780
|
-
setLoaded({
|
|
824
|
+
setLoaded({ regions, refNameAliases, cytobands, }: {
|
|
825
|
+
regions: import("@jbrowse/core/util").Region[];
|
|
826
|
+
refNameAliases: {
|
|
827
|
+
[x: string]: string;
|
|
828
|
+
};
|
|
829
|
+
cytobands: import("@jbrowse/core/util").Feature[];
|
|
830
|
+
}): void;
|
|
781
831
|
setError(e: unknown): void;
|
|
782
832
|
setRegions(regions: import("@jbrowse/core/util").Region[]): void;
|
|
783
833
|
setRefNameAliases(aliases: {
|
|
784
|
-
[x: string]: string
|
|
785
|
-
}, lcAliases: {
|
|
786
|
-
[x: string]: string | undefined;
|
|
834
|
+
[x: string]: string;
|
|
787
835
|
}): void;
|
|
788
836
|
setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
|
|
789
837
|
setLoadingP(p?: Promise<void>): void;
|
|
@@ -796,27 +844,27 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
796
844
|
getRefNameMapForAdapter(adapterConf: {
|
|
797
845
|
[x: string]: unknown;
|
|
798
846
|
}, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
|
|
799
|
-
[x: string]: string
|
|
847
|
+
[x: string]: string;
|
|
800
848
|
}>;
|
|
801
849
|
getReverseRefNameMapForAdapter(adapterConf: {
|
|
802
850
|
[x: string]: unknown;
|
|
803
851
|
}, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
|
|
804
|
-
[x: string]: string
|
|
852
|
+
[x: string]: string;
|
|
805
853
|
}>;
|
|
806
854
|
} & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
|
|
807
855
|
configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
|
|
808
856
|
}, {
|
|
809
857
|
error: unknown;
|
|
810
|
-
loaded: boolean;
|
|
811
858
|
loadingP: Promise<void> | undefined;
|
|
812
859
|
volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
|
|
813
860
|
refNameAliases: {
|
|
814
|
-
[x: string]: string
|
|
815
|
-
} | undefined;
|
|
816
|
-
lowerCaseRefNameAliases: {
|
|
817
|
-
[x: string]: string | undefined;
|
|
861
|
+
[x: string]: string;
|
|
818
862
|
} | undefined;
|
|
819
863
|
cytobands: import("@jbrowse/core/util").Feature[] | undefined;
|
|
864
|
+
} & {
|
|
865
|
+
readonly lowerCaseRefNameAliases: {
|
|
866
|
+
[k: string]: string;
|
|
867
|
+
} | undefined;
|
|
820
868
|
} & {
|
|
821
869
|
getConf(arg: string): any;
|
|
822
870
|
} & {
|
|
@@ -839,13 +887,17 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
839
887
|
getRefNameColor(refName: string): string | undefined;
|
|
840
888
|
isValidRefName(refName: string): boolean;
|
|
841
889
|
} & {
|
|
842
|
-
setLoaded({
|
|
890
|
+
setLoaded({ regions, refNameAliases, cytobands, }: {
|
|
891
|
+
regions: import("@jbrowse/core/util").Region[];
|
|
892
|
+
refNameAliases: {
|
|
893
|
+
[x: string]: string;
|
|
894
|
+
};
|
|
895
|
+
cytobands: import("@jbrowse/core/util").Feature[];
|
|
896
|
+
}): void;
|
|
843
897
|
setError(e: unknown): void;
|
|
844
898
|
setRegions(regions: import("@jbrowse/core/util").Region[]): void;
|
|
845
899
|
setRefNameAliases(aliases: {
|
|
846
|
-
[x: string]: string
|
|
847
|
-
}, lcAliases: {
|
|
848
|
-
[x: string]: string | undefined;
|
|
900
|
+
[x: string]: string;
|
|
849
901
|
}): void;
|
|
850
902
|
setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
|
|
851
903
|
setLoadingP(p?: Promise<void>): void;
|
|
@@ -858,12 +910,12 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
858
910
|
getRefNameMapForAdapter(adapterConf: {
|
|
859
911
|
[x: string]: unknown;
|
|
860
912
|
}, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
|
|
861
|
-
[x: string]: string
|
|
913
|
+
[x: string]: string;
|
|
862
914
|
}>;
|
|
863
915
|
getReverseRefNameMapForAdapter(adapterConf: {
|
|
864
916
|
[x: string]: unknown;
|
|
865
917
|
}, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
|
|
866
|
-
[x: string]: string
|
|
918
|
+
[x: string]: string;
|
|
867
919
|
}>;
|
|
868
920
|
}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>) | undefined;
|
|
869
921
|
readonly assemblyNamesList: any[];
|
|
@@ -874,16 +926,16 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
874
926
|
configuration: any;
|
|
875
927
|
} & import("mobx-state-tree/dist/internal").NonEmptyObject & {
|
|
876
928
|
error: unknown;
|
|
877
|
-
loaded: boolean;
|
|
878
929
|
loadingP: Promise<void> | undefined;
|
|
879
930
|
volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
|
|
880
931
|
refNameAliases: {
|
|
881
|
-
[x: string]: string
|
|
882
|
-
} | undefined;
|
|
883
|
-
lowerCaseRefNameAliases: {
|
|
884
|
-
[x: string]: string | undefined;
|
|
932
|
+
[x: string]: string;
|
|
885
933
|
} | undefined;
|
|
886
934
|
cytobands: import("@jbrowse/core/util").Feature[] | undefined;
|
|
935
|
+
} & {
|
|
936
|
+
readonly lowerCaseRefNameAliases: {
|
|
937
|
+
[k: string]: string;
|
|
938
|
+
} | undefined;
|
|
887
939
|
} & {
|
|
888
940
|
getConf(arg: string): any;
|
|
889
941
|
} & {
|
|
@@ -906,13 +958,17 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
906
958
|
getRefNameColor(refName: string): string | undefined;
|
|
907
959
|
isValidRefName(refName: string): boolean;
|
|
908
960
|
} & {
|
|
909
|
-
setLoaded({
|
|
961
|
+
setLoaded({ regions, refNameAliases, cytobands, }: {
|
|
962
|
+
regions: import("@jbrowse/core/util").Region[];
|
|
963
|
+
refNameAliases: {
|
|
964
|
+
[x: string]: string;
|
|
965
|
+
};
|
|
966
|
+
cytobands: import("@jbrowse/core/util").Feature[];
|
|
967
|
+
}): void;
|
|
910
968
|
setError(e: unknown): void;
|
|
911
969
|
setRegions(regions: import("@jbrowse/core/util").Region[]): void;
|
|
912
970
|
setRefNameAliases(aliases: {
|
|
913
|
-
[x: string]: string
|
|
914
|
-
}, lcAliases: {
|
|
915
|
-
[x: string]: string | undefined;
|
|
971
|
+
[x: string]: string;
|
|
916
972
|
}): void;
|
|
917
973
|
setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
|
|
918
974
|
setLoadingP(p?: Promise<void>): void;
|
|
@@ -925,27 +981,27 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
925
981
|
getRefNameMapForAdapter(adapterConf: {
|
|
926
982
|
[x: string]: unknown;
|
|
927
983
|
}, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
|
|
928
|
-
[x: string]: string
|
|
984
|
+
[x: string]: string;
|
|
929
985
|
}>;
|
|
930
986
|
getReverseRefNameMapForAdapter(adapterConf: {
|
|
931
987
|
[x: string]: unknown;
|
|
932
988
|
}, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
|
|
933
|
-
[x: string]: string
|
|
989
|
+
[x: string]: string;
|
|
934
990
|
}>;
|
|
935
991
|
} & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
|
|
936
992
|
configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
|
|
937
993
|
}, {
|
|
938
994
|
error: unknown;
|
|
939
|
-
loaded: boolean;
|
|
940
995
|
loadingP: Promise<void> | undefined;
|
|
941
996
|
volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
|
|
942
997
|
refNameAliases: {
|
|
943
|
-
[x: string]: string
|
|
944
|
-
} | undefined;
|
|
945
|
-
lowerCaseRefNameAliases: {
|
|
946
|
-
[x: string]: string | undefined;
|
|
998
|
+
[x: string]: string;
|
|
947
999
|
} | undefined;
|
|
948
1000
|
cytobands: import("@jbrowse/core/util").Feature[] | undefined;
|
|
1001
|
+
} & {
|
|
1002
|
+
readonly lowerCaseRefNameAliases: {
|
|
1003
|
+
[k: string]: string;
|
|
1004
|
+
} | undefined;
|
|
949
1005
|
} & {
|
|
950
1006
|
getConf(arg: string): any;
|
|
951
1007
|
} & {
|
|
@@ -968,13 +1024,17 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
968
1024
|
getRefNameColor(refName: string): string | undefined;
|
|
969
1025
|
isValidRefName(refName: string): boolean;
|
|
970
1026
|
} & {
|
|
971
|
-
setLoaded({
|
|
1027
|
+
setLoaded({ regions, refNameAliases, cytobands, }: {
|
|
1028
|
+
regions: import("@jbrowse/core/util").Region[];
|
|
1029
|
+
refNameAliases: {
|
|
1030
|
+
[x: string]: string;
|
|
1031
|
+
};
|
|
1032
|
+
cytobands: import("@jbrowse/core/util").Feature[];
|
|
1033
|
+
}): void;
|
|
972
1034
|
setError(e: unknown): void;
|
|
973
1035
|
setRegions(regions: import("@jbrowse/core/util").Region[]): void;
|
|
974
1036
|
setRefNameAliases(aliases: {
|
|
975
|
-
[x: string]: string
|
|
976
|
-
}, lcAliases: {
|
|
977
|
-
[x: string]: string | undefined;
|
|
1037
|
+
[x: string]: string;
|
|
978
1038
|
}): void;
|
|
979
1039
|
setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
|
|
980
1040
|
setLoadingP(p?: Promise<void>): void;
|
|
@@ -987,12 +1047,12 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
987
1047
|
getRefNameMapForAdapter(adapterConf: {
|
|
988
1048
|
[x: string]: unknown;
|
|
989
1049
|
}, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
|
|
990
|
-
[x: string]: string
|
|
1050
|
+
[x: string]: string;
|
|
991
1051
|
}>;
|
|
992
1052
|
getReverseRefNameMapForAdapter(adapterConf: {
|
|
993
1053
|
[x: string]: unknown;
|
|
994
1054
|
}, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
|
|
995
|
-
[x: string]: string
|
|
1055
|
+
[x: string]: string;
|
|
996
1056
|
}>;
|
|
997
1057
|
}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>) | undefined>;
|
|
998
1058
|
getRefNameMapForAdapter(adapterConf: {
|
|
@@ -1001,7 +1061,7 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
1001
1061
|
signal?: AbortSignal;
|
|
1002
1062
|
sessionId: string;
|
|
1003
1063
|
}): Promise<{
|
|
1004
|
-
[x: string]: string
|
|
1064
|
+
[x: string]: string;
|
|
1005
1065
|
} | undefined>;
|
|
1006
1066
|
getReverseRefNameMapForAdapter(adapterConf: {
|
|
1007
1067
|
[x: string]: unknown;
|
|
@@ -1009,7 +1069,7 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
1009
1069
|
signal?: AbortSignal;
|
|
1010
1070
|
sessionId: string;
|
|
1011
1071
|
}): Promise<{
|
|
1012
|
-
[x: string]: string
|
|
1072
|
+
[x: string]: string;
|
|
1013
1073
|
} | undefined>;
|
|
1014
1074
|
isValidRefName(refName: string, assemblyName: string): boolean;
|
|
1015
1075
|
} & {
|
|
@@ -1039,16 +1099,16 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
1039
1099
|
configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
|
|
1040
1100
|
}, {
|
|
1041
1101
|
error: unknown;
|
|
1042
|
-
loaded: boolean;
|
|
1043
1102
|
loadingP: Promise<void> | undefined;
|
|
1044
1103
|
volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
|
|
1045
1104
|
refNameAliases: {
|
|
1046
|
-
[x: string]: string
|
|
1047
|
-
} | undefined;
|
|
1048
|
-
lowerCaseRefNameAliases: {
|
|
1049
|
-
[x: string]: string | undefined;
|
|
1105
|
+
[x: string]: string;
|
|
1050
1106
|
} | undefined;
|
|
1051
1107
|
cytobands: import("@jbrowse/core/util").Feature[] | undefined;
|
|
1108
|
+
} & {
|
|
1109
|
+
readonly lowerCaseRefNameAliases: {
|
|
1110
|
+
[k: string]: string;
|
|
1111
|
+
} | undefined;
|
|
1052
1112
|
} & {
|
|
1053
1113
|
getConf(arg: string): any;
|
|
1054
1114
|
} & {
|
|
@@ -1071,13 +1131,17 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
1071
1131
|
getRefNameColor(refName: string): string | undefined;
|
|
1072
1132
|
isValidRefName(refName: string): boolean;
|
|
1073
1133
|
} & {
|
|
1074
|
-
setLoaded({
|
|
1134
|
+
setLoaded({ regions, refNameAliases, cytobands, }: {
|
|
1135
|
+
regions: import("@jbrowse/core/util").Region[];
|
|
1136
|
+
refNameAliases: {
|
|
1137
|
+
[x: string]: string;
|
|
1138
|
+
};
|
|
1139
|
+
cytobands: import("@jbrowse/core/util").Feature[];
|
|
1140
|
+
}): void;
|
|
1075
1141
|
setError(e: unknown): void;
|
|
1076
1142
|
setRegions(regions: import("@jbrowse/core/util").Region[]): void;
|
|
1077
1143
|
setRefNameAliases(aliases: {
|
|
1078
|
-
[x: string]: string
|
|
1079
|
-
}, lcAliases: {
|
|
1080
|
-
[x: string]: string | undefined;
|
|
1144
|
+
[x: string]: string;
|
|
1081
1145
|
}): void;
|
|
1082
1146
|
setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
|
|
1083
1147
|
setLoadingP(p?: Promise<void>): void;
|
|
@@ -1090,29 +1154,29 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
1090
1154
|
getRefNameMapForAdapter(adapterConf: {
|
|
1091
1155
|
[x: string]: unknown;
|
|
1092
1156
|
}, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
|
|
1093
|
-
[x: string]: string
|
|
1157
|
+
[x: string]: string;
|
|
1094
1158
|
}>;
|
|
1095
1159
|
getReverseRefNameMapForAdapter(adapterConf: {
|
|
1096
1160
|
[x: string]: unknown;
|
|
1097
1161
|
}, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
|
|
1098
|
-
[x: string]: string
|
|
1162
|
+
[x: string]: string;
|
|
1099
1163
|
}>;
|
|
1100
1164
|
}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
|
|
1101
1165
|
}, {
|
|
1102
|
-
readonly assemblyNameMap: Record<string,
|
|
1166
|
+
readonly assemblyNameMap: Record<string, {
|
|
1103
1167
|
configuration: any;
|
|
1104
1168
|
} & import("mobx-state-tree/dist/internal").NonEmptyObject & {
|
|
1105
1169
|
error: unknown;
|
|
1106
|
-
loaded: boolean;
|
|
1107
1170
|
loadingP: Promise<void> | undefined;
|
|
1108
1171
|
volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
|
|
1109
1172
|
refNameAliases: {
|
|
1110
|
-
[x: string]: string
|
|
1111
|
-
} | undefined;
|
|
1112
|
-
lowerCaseRefNameAliases: {
|
|
1113
|
-
[x: string]: string | undefined;
|
|
1173
|
+
[x: string]: string;
|
|
1114
1174
|
} | undefined;
|
|
1115
1175
|
cytobands: import("@jbrowse/core/util").Feature[] | undefined;
|
|
1176
|
+
} & {
|
|
1177
|
+
readonly lowerCaseRefNameAliases: {
|
|
1178
|
+
[k: string]: string;
|
|
1179
|
+
} | undefined;
|
|
1116
1180
|
} & {
|
|
1117
1181
|
getConf(arg: string): any;
|
|
1118
1182
|
} & {
|
|
@@ -1135,13 +1199,17 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
1135
1199
|
getRefNameColor(refName: string): string | undefined;
|
|
1136
1200
|
isValidRefName(refName: string): boolean;
|
|
1137
1201
|
} & {
|
|
1138
|
-
setLoaded({
|
|
1202
|
+
setLoaded({ regions, refNameAliases, cytobands, }: {
|
|
1203
|
+
regions: import("@jbrowse/core/util").Region[];
|
|
1204
|
+
refNameAliases: {
|
|
1205
|
+
[x: string]: string;
|
|
1206
|
+
};
|
|
1207
|
+
cytobands: import("@jbrowse/core/util").Feature[];
|
|
1208
|
+
}): void;
|
|
1139
1209
|
setError(e: unknown): void;
|
|
1140
1210
|
setRegions(regions: import("@jbrowse/core/util").Region[]): void;
|
|
1141
1211
|
setRefNameAliases(aliases: {
|
|
1142
|
-
[x: string]: string
|
|
1143
|
-
}, lcAliases: {
|
|
1144
|
-
[x: string]: string | undefined;
|
|
1212
|
+
[x: string]: string;
|
|
1145
1213
|
}): void;
|
|
1146
1214
|
setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
|
|
1147
1215
|
setLoadingP(p?: Promise<void>): void;
|
|
@@ -1154,27 +1222,27 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
1154
1222
|
getRefNameMapForAdapter(adapterConf: {
|
|
1155
1223
|
[x: string]: unknown;
|
|
1156
1224
|
}, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
|
|
1157
|
-
[x: string]: string
|
|
1225
|
+
[x: string]: string;
|
|
1158
1226
|
}>;
|
|
1159
1227
|
getReverseRefNameMapForAdapter(adapterConf: {
|
|
1160
1228
|
[x: string]: unknown;
|
|
1161
1229
|
}, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
|
|
1162
|
-
[x: string]: string
|
|
1230
|
+
[x: string]: string;
|
|
1163
1231
|
}>;
|
|
1164
1232
|
} & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
|
|
1165
1233
|
configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
|
|
1166
1234
|
}, {
|
|
1167
1235
|
error: unknown;
|
|
1168
|
-
loaded: boolean;
|
|
1169
1236
|
loadingP: Promise<void> | undefined;
|
|
1170
1237
|
volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
|
|
1171
1238
|
refNameAliases: {
|
|
1172
|
-
[x: string]: string
|
|
1173
|
-
} | undefined;
|
|
1174
|
-
lowerCaseRefNameAliases: {
|
|
1175
|
-
[x: string]: string | undefined;
|
|
1239
|
+
[x: string]: string;
|
|
1176
1240
|
} | undefined;
|
|
1177
1241
|
cytobands: import("@jbrowse/core/util").Feature[] | undefined;
|
|
1242
|
+
} & {
|
|
1243
|
+
readonly lowerCaseRefNameAliases: {
|
|
1244
|
+
[k: string]: string;
|
|
1245
|
+
} | undefined;
|
|
1178
1246
|
} & {
|
|
1179
1247
|
getConf(arg: string): any;
|
|
1180
1248
|
} & {
|
|
@@ -1197,13 +1265,17 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
1197
1265
|
getRefNameColor(refName: string): string | undefined;
|
|
1198
1266
|
isValidRefName(refName: string): boolean;
|
|
1199
1267
|
} & {
|
|
1200
|
-
setLoaded({
|
|
1268
|
+
setLoaded({ regions, refNameAliases, cytobands, }: {
|
|
1269
|
+
regions: import("@jbrowse/core/util").Region[];
|
|
1270
|
+
refNameAliases: {
|
|
1271
|
+
[x: string]: string;
|
|
1272
|
+
};
|
|
1273
|
+
cytobands: import("@jbrowse/core/util").Feature[];
|
|
1274
|
+
}): void;
|
|
1201
1275
|
setError(e: unknown): void;
|
|
1202
1276
|
setRegions(regions: import("@jbrowse/core/util").Region[]): void;
|
|
1203
1277
|
setRefNameAliases(aliases: {
|
|
1204
|
-
[x: string]: string
|
|
1205
|
-
}, lcAliases: {
|
|
1206
|
-
[x: string]: string | undefined;
|
|
1278
|
+
[x: string]: string;
|
|
1207
1279
|
}): void;
|
|
1208
1280
|
setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
|
|
1209
1281
|
setLoadingP(p?: Promise<void>): void;
|
|
@@ -1216,29 +1288,29 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
1216
1288
|
getRefNameMapForAdapter(adapterConf: {
|
|
1217
1289
|
[x: string]: unknown;
|
|
1218
1290
|
}, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
|
|
1219
|
-
[x: string]: string
|
|
1291
|
+
[x: string]: string;
|
|
1220
1292
|
}>;
|
|
1221
1293
|
getReverseRefNameMapForAdapter(adapterConf: {
|
|
1222
1294
|
[x: string]: unknown;
|
|
1223
1295
|
}, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
|
|
1224
|
-
[x: string]: string
|
|
1296
|
+
[x: string]: string;
|
|
1225
1297
|
}>;
|
|
1226
|
-
}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized
|
|
1298
|
+
}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>>;
|
|
1227
1299
|
} & {
|
|
1228
1300
|
get(asmName: string): ({
|
|
1229
1301
|
configuration: any;
|
|
1230
1302
|
} & import("mobx-state-tree/dist/internal").NonEmptyObject & {
|
|
1231
1303
|
error: unknown;
|
|
1232
|
-
loaded: boolean;
|
|
1233
1304
|
loadingP: Promise<void> | undefined;
|
|
1234
1305
|
volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
|
|
1235
1306
|
refNameAliases: {
|
|
1236
|
-
[x: string]: string
|
|
1237
|
-
} | undefined;
|
|
1238
|
-
lowerCaseRefNameAliases: {
|
|
1239
|
-
[x: string]: string | undefined;
|
|
1307
|
+
[x: string]: string;
|
|
1240
1308
|
} | undefined;
|
|
1241
1309
|
cytobands: import("@jbrowse/core/util").Feature[] | undefined;
|
|
1310
|
+
} & {
|
|
1311
|
+
readonly lowerCaseRefNameAliases: {
|
|
1312
|
+
[k: string]: string;
|
|
1313
|
+
} | undefined;
|
|
1242
1314
|
} & {
|
|
1243
1315
|
getConf(arg: string): any;
|
|
1244
1316
|
} & {
|
|
@@ -1261,13 +1333,17 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
1261
1333
|
getRefNameColor(refName: string): string | undefined;
|
|
1262
1334
|
isValidRefName(refName: string): boolean;
|
|
1263
1335
|
} & {
|
|
1264
|
-
setLoaded({
|
|
1336
|
+
setLoaded({ regions, refNameAliases, cytobands, }: {
|
|
1337
|
+
regions: import("@jbrowse/core/util").Region[];
|
|
1338
|
+
refNameAliases: {
|
|
1339
|
+
[x: string]: string;
|
|
1340
|
+
};
|
|
1341
|
+
cytobands: import("@jbrowse/core/util").Feature[];
|
|
1342
|
+
}): void;
|
|
1265
1343
|
setError(e: unknown): void;
|
|
1266
1344
|
setRegions(regions: import("@jbrowse/core/util").Region[]): void;
|
|
1267
1345
|
setRefNameAliases(aliases: {
|
|
1268
|
-
[x: string]: string
|
|
1269
|
-
}, lcAliases: {
|
|
1270
|
-
[x: string]: string | undefined;
|
|
1346
|
+
[x: string]: string;
|
|
1271
1347
|
}): void;
|
|
1272
1348
|
setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
|
|
1273
1349
|
setLoadingP(p?: Promise<void>): void;
|
|
@@ -1280,27 +1356,27 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
1280
1356
|
getRefNameMapForAdapter(adapterConf: {
|
|
1281
1357
|
[x: string]: unknown;
|
|
1282
1358
|
}, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
|
|
1283
|
-
[x: string]: string
|
|
1359
|
+
[x: string]: string;
|
|
1284
1360
|
}>;
|
|
1285
1361
|
getReverseRefNameMapForAdapter(adapterConf: {
|
|
1286
1362
|
[x: string]: unknown;
|
|
1287
1363
|
}, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
|
|
1288
|
-
[x: string]: string
|
|
1364
|
+
[x: string]: string;
|
|
1289
1365
|
}>;
|
|
1290
1366
|
} & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
|
|
1291
1367
|
configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
|
|
1292
1368
|
}, {
|
|
1293
1369
|
error: unknown;
|
|
1294
|
-
loaded: boolean;
|
|
1295
1370
|
loadingP: Promise<void> | undefined;
|
|
1296
1371
|
volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
|
|
1297
1372
|
refNameAliases: {
|
|
1298
|
-
[x: string]: string
|
|
1299
|
-
} | undefined;
|
|
1300
|
-
lowerCaseRefNameAliases: {
|
|
1301
|
-
[x: string]: string | undefined;
|
|
1373
|
+
[x: string]: string;
|
|
1302
1374
|
} | undefined;
|
|
1303
1375
|
cytobands: import("@jbrowse/core/util").Feature[] | undefined;
|
|
1376
|
+
} & {
|
|
1377
|
+
readonly lowerCaseRefNameAliases: {
|
|
1378
|
+
[k: string]: string;
|
|
1379
|
+
} | undefined;
|
|
1304
1380
|
} & {
|
|
1305
1381
|
getConf(arg: string): any;
|
|
1306
1382
|
} & {
|
|
@@ -1323,13 +1399,17 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
1323
1399
|
getRefNameColor(refName: string): string | undefined;
|
|
1324
1400
|
isValidRefName(refName: string): boolean;
|
|
1325
1401
|
} & {
|
|
1326
|
-
setLoaded({
|
|
1402
|
+
setLoaded({ regions, refNameAliases, cytobands, }: {
|
|
1403
|
+
regions: import("@jbrowse/core/util").Region[];
|
|
1404
|
+
refNameAliases: {
|
|
1405
|
+
[x: string]: string;
|
|
1406
|
+
};
|
|
1407
|
+
cytobands: import("@jbrowse/core/util").Feature[];
|
|
1408
|
+
}): void;
|
|
1327
1409
|
setError(e: unknown): void;
|
|
1328
1410
|
setRegions(regions: import("@jbrowse/core/util").Region[]): void;
|
|
1329
1411
|
setRefNameAliases(aliases: {
|
|
1330
|
-
[x: string]: string
|
|
1331
|
-
}, lcAliases: {
|
|
1332
|
-
[x: string]: string | undefined;
|
|
1412
|
+
[x: string]: string;
|
|
1333
1413
|
}): void;
|
|
1334
1414
|
setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
|
|
1335
1415
|
setLoadingP(p?: Promise<void>): void;
|
|
@@ -1342,12 +1422,12 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
1342
1422
|
getRefNameMapForAdapter(adapterConf: {
|
|
1343
1423
|
[x: string]: unknown;
|
|
1344
1424
|
}, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
|
|
1345
|
-
[x: string]: string
|
|
1425
|
+
[x: string]: string;
|
|
1346
1426
|
}>;
|
|
1347
1427
|
getReverseRefNameMapForAdapter(adapterConf: {
|
|
1348
1428
|
[x: string]: unknown;
|
|
1349
1429
|
}, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
|
|
1350
|
-
[x: string]: string
|
|
1430
|
+
[x: string]: string;
|
|
1351
1431
|
}>;
|
|
1352
1432
|
}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>) | undefined;
|
|
1353
1433
|
readonly assemblyNamesList: any[];
|
|
@@ -1358,16 +1438,16 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
1358
1438
|
configuration: any;
|
|
1359
1439
|
} & import("mobx-state-tree/dist/internal").NonEmptyObject & {
|
|
1360
1440
|
error: unknown;
|
|
1361
|
-
loaded: boolean;
|
|
1362
1441
|
loadingP: Promise<void> | undefined;
|
|
1363
1442
|
volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
|
|
1364
1443
|
refNameAliases: {
|
|
1365
|
-
[x: string]: string
|
|
1366
|
-
} | undefined;
|
|
1367
|
-
lowerCaseRefNameAliases: {
|
|
1368
|
-
[x: string]: string | undefined;
|
|
1444
|
+
[x: string]: string;
|
|
1369
1445
|
} | undefined;
|
|
1370
1446
|
cytobands: import("@jbrowse/core/util").Feature[] | undefined;
|
|
1447
|
+
} & {
|
|
1448
|
+
readonly lowerCaseRefNameAliases: {
|
|
1449
|
+
[k: string]: string;
|
|
1450
|
+
} | undefined;
|
|
1371
1451
|
} & {
|
|
1372
1452
|
getConf(arg: string): any;
|
|
1373
1453
|
} & {
|
|
@@ -1390,13 +1470,17 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
1390
1470
|
getRefNameColor(refName: string): string | undefined;
|
|
1391
1471
|
isValidRefName(refName: string): boolean;
|
|
1392
1472
|
} & {
|
|
1393
|
-
setLoaded({
|
|
1473
|
+
setLoaded({ regions, refNameAliases, cytobands, }: {
|
|
1474
|
+
regions: import("@jbrowse/core/util").Region[];
|
|
1475
|
+
refNameAliases: {
|
|
1476
|
+
[x: string]: string;
|
|
1477
|
+
};
|
|
1478
|
+
cytobands: import("@jbrowse/core/util").Feature[];
|
|
1479
|
+
}): void;
|
|
1394
1480
|
setError(e: unknown): void;
|
|
1395
1481
|
setRegions(regions: import("@jbrowse/core/util").Region[]): void;
|
|
1396
1482
|
setRefNameAliases(aliases: {
|
|
1397
|
-
[x: string]: string
|
|
1398
|
-
}, lcAliases: {
|
|
1399
|
-
[x: string]: string | undefined;
|
|
1483
|
+
[x: string]: string;
|
|
1400
1484
|
}): void;
|
|
1401
1485
|
setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
|
|
1402
1486
|
setLoadingP(p?: Promise<void>): void;
|
|
@@ -1409,27 +1493,27 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
1409
1493
|
getRefNameMapForAdapter(adapterConf: {
|
|
1410
1494
|
[x: string]: unknown;
|
|
1411
1495
|
}, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
|
|
1412
|
-
[x: string]: string
|
|
1496
|
+
[x: string]: string;
|
|
1413
1497
|
}>;
|
|
1414
1498
|
getReverseRefNameMapForAdapter(adapterConf: {
|
|
1415
1499
|
[x: string]: unknown;
|
|
1416
1500
|
}, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
|
|
1417
|
-
[x: string]: string
|
|
1501
|
+
[x: string]: string;
|
|
1418
1502
|
}>;
|
|
1419
1503
|
} & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
|
|
1420
1504
|
configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
|
|
1421
1505
|
}, {
|
|
1422
1506
|
error: unknown;
|
|
1423
|
-
loaded: boolean;
|
|
1424
1507
|
loadingP: Promise<void> | undefined;
|
|
1425
1508
|
volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
|
|
1426
1509
|
refNameAliases: {
|
|
1427
|
-
[x: string]: string
|
|
1428
|
-
} | undefined;
|
|
1429
|
-
lowerCaseRefNameAliases: {
|
|
1430
|
-
[x: string]: string | undefined;
|
|
1510
|
+
[x: string]: string;
|
|
1431
1511
|
} | undefined;
|
|
1432
1512
|
cytobands: import("@jbrowse/core/util").Feature[] | undefined;
|
|
1513
|
+
} & {
|
|
1514
|
+
readonly lowerCaseRefNameAliases: {
|
|
1515
|
+
[k: string]: string;
|
|
1516
|
+
} | undefined;
|
|
1433
1517
|
} & {
|
|
1434
1518
|
getConf(arg: string): any;
|
|
1435
1519
|
} & {
|
|
@@ -1452,13 +1536,17 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
1452
1536
|
getRefNameColor(refName: string): string | undefined;
|
|
1453
1537
|
isValidRefName(refName: string): boolean;
|
|
1454
1538
|
} & {
|
|
1455
|
-
setLoaded({
|
|
1539
|
+
setLoaded({ regions, refNameAliases, cytobands, }: {
|
|
1540
|
+
regions: import("@jbrowse/core/util").Region[];
|
|
1541
|
+
refNameAliases: {
|
|
1542
|
+
[x: string]: string;
|
|
1543
|
+
};
|
|
1544
|
+
cytobands: import("@jbrowse/core/util").Feature[];
|
|
1545
|
+
}): void;
|
|
1456
1546
|
setError(e: unknown): void;
|
|
1457
1547
|
setRegions(regions: import("@jbrowse/core/util").Region[]): void;
|
|
1458
1548
|
setRefNameAliases(aliases: {
|
|
1459
|
-
[x: string]: string
|
|
1460
|
-
}, lcAliases: {
|
|
1461
|
-
[x: string]: string | undefined;
|
|
1549
|
+
[x: string]: string;
|
|
1462
1550
|
}): void;
|
|
1463
1551
|
setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
|
|
1464
1552
|
setLoadingP(p?: Promise<void>): void;
|
|
@@ -1471,12 +1559,12 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
1471
1559
|
getRefNameMapForAdapter(adapterConf: {
|
|
1472
1560
|
[x: string]: unknown;
|
|
1473
1561
|
}, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
|
|
1474
|
-
[x: string]: string
|
|
1562
|
+
[x: string]: string;
|
|
1475
1563
|
}>;
|
|
1476
1564
|
getReverseRefNameMapForAdapter(adapterConf: {
|
|
1477
1565
|
[x: string]: unknown;
|
|
1478
1566
|
}, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
|
|
1479
|
-
[x: string]: string
|
|
1567
|
+
[x: string]: string;
|
|
1480
1568
|
}>;
|
|
1481
1569
|
}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>) | undefined>;
|
|
1482
1570
|
getRefNameMapForAdapter(adapterConf: {
|
|
@@ -1485,7 +1573,7 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
1485
1573
|
signal?: AbortSignal;
|
|
1486
1574
|
sessionId: string;
|
|
1487
1575
|
}): Promise<{
|
|
1488
|
-
[x: string]: string
|
|
1576
|
+
[x: string]: string;
|
|
1489
1577
|
} | undefined>;
|
|
1490
1578
|
getReverseRefNameMapForAdapter(adapterConf: {
|
|
1491
1579
|
[x: string]: unknown;
|
|
@@ -1493,7 +1581,7 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
1493
1581
|
signal?: AbortSignal;
|
|
1494
1582
|
sessionId: string;
|
|
1495
1583
|
}): Promise<{
|
|
1496
|
-
[x: string]: string
|
|
1584
|
+
[x: string]: string;
|
|
1497
1585
|
} | undefined>;
|
|
1498
1586
|
isValidRefName(refName: string, assemblyName: string): boolean;
|
|
1499
1587
|
} & {
|
|
@@ -1548,9 +1636,7 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
1548
1636
|
defaultValue: never[];
|
|
1549
1637
|
description: string;
|
|
1550
1638
|
};
|
|
1551
|
-
sequence: import("@jbrowse/core/configuration"
|
|
1552
|
-
* #getter
|
|
1553
|
-
*/).AnyConfigurationSchemaType;
|
|
1639
|
+
sequence: import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
|
|
1554
1640
|
refNameColors: {
|
|
1555
1641
|
type: string;
|
|
1556
1642
|
defaultValue: never[];
|
|
@@ -1575,7 +1661,7 @@ export declare function SessionTracksManagerSessionMixin(pluginManager: PluginMa
|
|
|
1575
1661
|
} & {
|
|
1576
1662
|
getReferring(object: IAnyStateTreeNode): import("./ReferenceManagement").ReferringNode[];
|
|
1577
1663
|
} & {
|
|
1578
|
-
removeReferring(referring: import("./ReferenceManagement").ReferringNode[], track: import("@jbrowse/core/pluggableElementTypes").BaseTrackConfig, callbacks:
|
|
1664
|
+
removeReferring(referring: import("./ReferenceManagement").ReferringNode[], track: import("@jbrowse/core/pluggableElementTypes").BaseTrackConfig, callbacks: ((arg: string) => void)[], dereferenceTypeCount: Record<string, number>): void;
|
|
1579
1665
|
} & {
|
|
1580
1666
|
readonly tracks: ({
|
|
1581
1667
|
[x: string]: any;
|