@jbrowse/plugin-linear-genome-view 1.6.9 → 1.7.3
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/BaseLinearDisplay/components/BaseLinearDisplay.d.ts +13 -13
- package/dist/BaseLinearDisplay/components/BaseLinearDisplay.js +232 -0
- package/dist/BaseLinearDisplay/components/Block.d.ts +15 -15
- package/dist/BaseLinearDisplay/components/Block.js +86 -0
- package/dist/BaseLinearDisplay/components/LinearBlocks.d.ts +12 -12
- package/dist/BaseLinearDisplay/components/LinearBlocks.js +110 -0
- package/dist/BaseLinearDisplay/components/ServerSideRenderedBlockContent.d.ts +4 -4
- package/dist/BaseLinearDisplay/components/ServerSideRenderedBlockContent.js +192 -0
- package/dist/BaseLinearDisplay/index.d.ts +5 -5
- package/dist/BaseLinearDisplay/index.js +41 -0
- package/dist/BaseLinearDisplay/models/BaseLinearDisplayModel.d.ts +227 -230
- package/dist/BaseLinearDisplay/models/BaseLinearDisplayModel.js +763 -0
- package/dist/BaseLinearDisplay/models/baseLinearDisplayConfigSchema.d.ts +1 -1
- package/dist/BaseLinearDisplay/models/baseLinearDisplayConfigSchema.js +24 -0
- package/dist/BaseLinearDisplay/models/serverSideRenderedBlock.d.ts +96 -96
- package/dist/BaseLinearDisplay/models/serverSideRenderedBlock.js +328 -0
- package/dist/LinearBareDisplay/configSchema.d.ts +2 -2
- package/dist/LinearBareDisplay/configSchema.js +19 -0
- package/dist/LinearBareDisplay/index.d.ts +2 -2
- package/dist/LinearBareDisplay/index.js +21 -0
- package/dist/LinearBareDisplay/index.test.js +33 -0
- package/dist/LinearBareDisplay/model.d.ts +192 -192
- package/dist/LinearBareDisplay/model.js +44 -0
- package/dist/LinearBasicDisplay/components/SetMaxHeight.d.ts +10 -10
- package/dist/LinearBasicDisplay/components/SetMaxHeight.js +94 -0
- package/dist/LinearBasicDisplay/configSchema.d.ts +2 -2
- package/dist/LinearBasicDisplay/configSchema.js +25 -0
- package/dist/LinearBasicDisplay/index.d.ts +2 -2
- package/dist/LinearBasicDisplay/index.js +23 -0
- package/dist/LinearBasicDisplay/model.d.ts +213 -213
- package/dist/LinearBasicDisplay/model.js +162 -0
- package/dist/LinearGenomeView/components/CenterLine.d.ts +14 -14
- package/dist/LinearGenomeView/components/CenterLine.js +80 -0
- package/dist/LinearGenomeView/components/ExportSvgDialog.d.ts +6 -6
- package/dist/LinearGenomeView/components/ExportSvgDialog.js +137 -0
- package/dist/LinearGenomeView/components/Header.d.ts +7 -7
- package/dist/LinearGenomeView/components/Header.js +144 -0
- package/dist/LinearGenomeView/components/HelpDialog.d.ts +5 -5
- package/dist/LinearGenomeView/components/HelpDialog.js +48 -0
- package/dist/LinearGenomeView/components/ImportForm.d.ts +7 -7
- package/dist/LinearGenomeView/components/ImportForm.js +330 -0
- package/dist/LinearGenomeView/components/LinearGenomeView.d.ts +7 -7
- package/dist/LinearGenomeView/components/LinearGenomeView.js +129 -0
- package/dist/LinearGenomeView/components/LinearGenomeView.test.js +234 -0
- package/dist/LinearGenomeView/components/LinearGenomeViewSvg.d.ts +4 -4
- package/dist/LinearGenomeView/components/LinearGenomeViewSvg.js +349 -0
- package/dist/LinearGenomeView/components/MiniControls.d.ts +6 -6
- package/dist/LinearGenomeView/components/MiniControls.js +83 -0
- package/dist/LinearGenomeView/components/OverviewRubberBand.d.ts +22 -22
- package/dist/LinearGenomeView/components/OverviewRubberBand.js +310 -0
- package/dist/LinearGenomeView/components/OverviewScaleBar.d.ts +132 -124
- package/dist/LinearGenomeView/components/OverviewScaleBar.js +403 -0
- package/dist/LinearGenomeView/components/RefNameAutocomplete.d.ts +21 -21
- package/dist/LinearGenomeView/components/RefNameAutocomplete.js +331 -0
- package/dist/LinearGenomeView/components/RubberBand.d.ts +9 -20
- package/dist/LinearGenomeView/components/RubberBand.js +309 -0
- package/dist/LinearGenomeView/components/Ruler.d.ts +27 -27
- package/dist/LinearGenomeView/components/Ruler.js +101 -0
- package/dist/LinearGenomeView/components/ScaleBar.d.ts +401 -401
- package/dist/LinearGenomeView/components/ScaleBar.js +184 -0
- package/dist/LinearGenomeView/components/ScaleBar.test.js +180 -0
- package/dist/LinearGenomeView/components/SearchBox.d.ts +8 -8
- package/dist/LinearGenomeView/components/SearchBox.js +201 -0
- package/dist/LinearGenomeView/components/SearchResultsDialog.d.ts +8 -8
- package/dist/LinearGenomeView/components/SearchResultsDialog.js +159 -0
- package/dist/LinearGenomeView/components/SequenceDialog.d.ts +8 -8
- package/dist/LinearGenomeView/components/SequenceDialog.js +304 -0
- package/dist/LinearGenomeView/components/TrackContainer.d.ts +9 -9
- package/dist/LinearGenomeView/components/TrackContainer.js +179 -0
- package/dist/LinearGenomeView/components/TrackLabel.d.ts +44 -44
- package/dist/LinearGenomeView/components/TrackLabel.js +165 -0
- package/dist/LinearGenomeView/components/TracksContainer.d.ts +10 -10
- package/dist/LinearGenomeView/components/TracksContainer.js +214 -0
- package/dist/LinearGenomeView/components/VerticalGuides.d.ts +9 -9
- package/dist/LinearGenomeView/components/VerticalGuides.js +116 -0
- package/dist/LinearGenomeView/components/ZoomControls.d.ts +7 -7
- package/dist/LinearGenomeView/components/ZoomControls.js +92 -0
- package/dist/LinearGenomeView/components/util.d.ts +2 -2
- package/dist/LinearGenomeView/components/util.js +16 -0
- package/dist/LinearGenomeView/index.d.ts +292 -292
- package/dist/LinearGenomeView/index.js +1418 -0
- package/dist/LinearGenomeView/index.test.js +1170 -0
- package/dist/LinearGenomeView/util.d.ts +14 -14
- package/dist/LinearGenomeView/util.js +93 -0
- package/dist/LinearGenomeView/util.test.js +78 -0
- package/dist/index.d.ts +565 -565
- package/dist/index.js +293 -6
- package/package.json +6 -9
- package/src/BaseLinearDisplay/models/BaseLinearDisplayModel.tsx +2 -0
- package/src/BaseLinearDisplay/models/serverSideRenderedBlock.ts +10 -8
- package/src/LinearBasicDisplay/components/SetMaxHeight.tsx +1 -1
- package/src/LinearBasicDisplay/model.ts +17 -18
- package/src/LinearGenomeView/components/Header.tsx +1 -1
- package/src/LinearGenomeView/components/ImportForm.tsx +10 -4
- package/src/LinearGenomeView/components/LinearGenomeView.test.js +1 -0
- package/src/LinearGenomeView/components/OverviewScaleBar.tsx +2 -2
- package/src/LinearGenomeView/components/RubberBand.tsx +14 -24
- package/src/LinearGenomeView/components/ScaleBar.test.tsx +1 -0
- package/src/LinearGenomeView/components/ScaleBar.tsx +3 -6
- package/src/LinearGenomeView/components/SequenceDialog.tsx +1 -1
- package/src/LinearGenomeView/components/TrackLabel.tsx +1 -1
- package/src/LinearGenomeView/components/__snapshots__/LinearGenomeView.test.js.snap +0 -4
- package/src/LinearGenomeView/index.tsx +2 -3
- package/dist/LinearBareDisplay/index.test.d.ts +0 -1
- package/dist/LinearGenomeView/components/LinearGenomeView.test.d.ts +0 -1
- package/dist/plugin-linear-genome-view.cjs.development.js +0 -8121
- package/dist/plugin-linear-genome-view.cjs.development.js.map +0 -1
- package/dist/plugin-linear-genome-view.cjs.production.min.js +0 -2
- package/dist/plugin-linear-genome-view.cjs.production.min.js.map +0 -1
- package/dist/plugin-linear-genome-view.esm.js +0 -8105
- package/dist/plugin-linear-genome-view.esm.js.map +0 -1
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export declare const baseLinearDisplayConfigSchema: import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
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export declare const baseLinearDisplayConfigSchema: import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
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"use strict";
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Object.defineProperty(exports, "__esModule", {
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value: true
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});
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exports.baseLinearDisplayConfigSchema = void 0;
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var _configuration = require("@jbrowse/core/configuration");
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var baseLinearDisplayConfigSchema = (0, _configuration.ConfigurationSchema)('BaseLinearDisplay', {
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maxFeatureScreenDensity: {
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type: 'number',
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description: 'maximum features per pixel that is displayed in the view, used if byte size estimates not available',
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defaultValue: 0.3
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},
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fetchSizeLimit: {
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type: 'number',
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defaultValue: 1000000,
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description: "maximum data to attempt to download for a given track, used if adapter doesn't specify one"
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}
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}, {
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explicitIdentifier: 'displayId'
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});
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exports.baseLinearDisplayConfigSchema = baseLinearDisplayConfigSchema;
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import
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import {
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import {
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import
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declare const blockState: import("mobx-state-tree").IModelType<{
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key: import("mobx-state-tree").ISimpleType<string>;
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region: import("mobx-state-tree").IModelType<{
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refName: import("mobx-state-tree").ISimpleType<string>;
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end: import("mobx-state-tree").ISimpleType<number>;
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reversed: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
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} & {
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assemblyName: import("mobx-state-tree").ISimpleType<string>;
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}, {
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setRefName(newRefName: string): void;
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}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
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reloadFlag: import("mobx-state-tree").IType<number | undefined, number, number>;
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isLeftEndOfDisplayedRegion: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
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isRightEndOfDisplayedRegion: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
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doReload(): void;
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afterAttach(): void;
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setStatus(message: string): void;
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setLoading(abortController: AbortController): void;
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setMessage(messageText: string): void;
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setRendered(props: {
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reactElement: React.ReactElement;
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features: Map<string, Feature>;
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layout: any;
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maxHeightReached: boolean;
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renderProps: any;
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setError(error: Error | unknown): void;
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reload(): void;
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beforeDestroy(): void;
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}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
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export default blockState;
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export declare type BlockStateModel = typeof blockState;
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export declare type BlockModel = Instance<BlockStateModel>;
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export declare function renderBlockData(self: Instance<BlockStateModel>, optDisplay?: AbstractDisplayModel): {
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rendererType: any;
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rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
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renderProps: any;
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cannotBeRenderedReason: any;
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displayError: any;
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statusCallback: (message: string) => void;
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assemblyName: string;
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regions: (import("mobx-state-tree").ModelInstanceTypeProps<{
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refName: import("mobx-state-tree").ISimpleType<string>;
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reversed: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
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assemblyName: import("mobx-state-tree").ISimpleType<string>;
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}> & {
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setRefName(newRefName: string): void;
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} & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
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refName: import("mobx-state-tree").ISimpleType<string>;
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reversed: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
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}, {
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setRefName(newRefName: string): void;
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}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>)[];
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adapterConfig: any;
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rendererType: any;
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sessionId: string;
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reloadFlag: number;
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};
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};
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import React from 'react';
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import { Instance } from 'mobx-state-tree';
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import { Feature } from '@jbrowse/core/util';
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import { AbstractDisplayModel } from '@jbrowse/core/util/types';
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declare const blockState: import("mobx-state-tree").IModelType<{
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key: import("mobx-state-tree").ISimpleType<string>;
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region: import("mobx-state-tree").IModelType<{
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refName: import("mobx-state-tree").ISimpleType<string>;
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start: import("mobx-state-tree").ISimpleType<number>;
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end: import("mobx-state-tree").ISimpleType<number>;
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reversed: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
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} & {
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assemblyName: import("mobx-state-tree").ISimpleType<string>;
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}, {
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setRefName(newRefName: string): void;
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}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
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reloadFlag: import("mobx-state-tree").IType<number | undefined, number, number>;
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isLeftEndOfDisplayedRegion: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
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isRightEndOfDisplayedRegion: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
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}, {
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renderInProgress: AbortController | undefined;
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filled: boolean;
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reactElement: React.ReactElement<any, string | React.JSXElementConstructor<any>> | undefined;
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features: Map<string, Feature> | undefined;
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layout: any;
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status: string;
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error: unknown;
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message: string | undefined;
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maxHeightReached: boolean;
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ReactComponent: ({ model, }: {
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model: any;
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}) => any;
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renderProps: any;
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} & {
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doReload(): void;
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afterAttach(): void;
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setStatus(message: string): void;
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setLoading(abortController: AbortController): void;
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setMessage(messageText: string): void;
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setRendered(props: {
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reactElement: React.ReactElement;
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features: Map<string, Feature>;
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layout: any;
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renderProps: any;
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setError(error: Error | unknown): void;
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reload(): void;
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beforeDestroy(): void;
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}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
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export declare type BlockStateModel = typeof blockState;
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export declare type BlockModel = Instance<BlockStateModel>;
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export declare function renderBlockData(self: Instance<BlockStateModel>, optDisplay?: AbstractDisplayModel): {
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rendererType: any;
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rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
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renderProps: any;
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cannotBeRenderedReason: any;
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displayError: any;
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renderArgs: {
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statusCallback: (message: string) => void;
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assemblyName: string;
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regions: (import("mobx-state-tree").ModelInstanceTypeProps<{
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refName: import("mobx-state-tree").ISimpleType<string>;
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reversed: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
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} & {
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assemblyName: import("mobx-state-tree").ISimpleType<string>;
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}> & {
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setRefName(newRefName: string): void;
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} & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
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refName: import("mobx-state-tree").ISimpleType<string>;
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start: import("mobx-state-tree").ISimpleType<number>;
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end: import("mobx-state-tree").ISimpleType<number>;
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reversed: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
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} & {
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assemblyName: import("mobx-state-tree").ISimpleType<string>;
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}, {
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setRefName(newRefName: string): void;
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}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>)[];
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adapterConfig: any;
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rendererType: any;
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sessionId: string;
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blockKey: string;
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};
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} | {
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displayError: unknown;
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cannotBeRenderedReason?: undefined;
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renderArgs?: undefined;
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};
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@@ -0,0 +1,328 @@
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"use strict";
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var _interopRequireDefault = require("@babel/runtime/helpers/interopRequireDefault");
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exports["default"] = void 0;
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exports.renderBlockData = renderBlockData;
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var _defineProperty2 = _interopRequireDefault(require("@babel/runtime/helpers/defineProperty"));
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var _asyncToGenerator2 = _interopRequireDefault(require("@babel/runtime/helpers/asyncToGenerator"));
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var _mobxStateTree = require("mobx-state-tree");
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var _configuration = require("@jbrowse/core/configuration");
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var _ServerSideRenderedBlockContent = _interopRequireDefault(require("../components/ServerSideRenderedBlockContent"));
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function ownKeys(object, enumerableOnly) { var keys = Object.keys(object); if (Object.getOwnPropertySymbols) { var symbols = Object.getOwnPropertySymbols(object); enumerableOnly && (symbols = symbols.filter(function (sym) { return Object.getOwnPropertyDescriptor(object, sym).enumerable; })), keys.push.apply(keys, symbols); } return keys; }
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function _objectSpread(target) { for (var i = 1; i < arguments.length; i++) { var source = null != arguments[i] ? arguments[i] : {}; i % 2 ? ownKeys(Object(source), !0).forEach(function (key) { (0, _defineProperty2["default"])(target, key, source[key]); }) : Object.getOwnPropertyDescriptors ? Object.defineProperties(target, Object.getOwnPropertyDescriptors(source)) : ownKeys(Object(source)).forEach(function (key) { Object.defineProperty(target, key, Object.getOwnPropertyDescriptor(source, key)); }); } return target; }
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// the MST state of a single server-side-rendered block in a display
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var blockState = _mobxStateTree.types.model('BlockState', {
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key: _mobxStateTree.types.string,
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region: _mst.Region,
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reloadFlag: 0,
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isLeftEndOfDisplayedRegion: false,
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isRightEndOfDisplayedRegion: false
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}) // NOTE: all this volatile stuff has to be filled in at once, so that it stays consistent
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["volatile"](function () {
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return {
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features: undefined,
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layout: undefined,
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status: '',
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error: undefined,
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message: undefined,
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maxHeightReached: false,
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ReactComponent: _ServerSideRenderedBlockContent["default"],
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renderProps: undefined
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};
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}).actions(function (self) {
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var renderInProgress;
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return {
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doReload: function doReload() {
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},
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afterAttach: function afterAttach() {
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var display = (0, _util.getContainingDisplay)(self);
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(0, _util.makeAbortableReaction)(self, renderBlockData, renderBlockEffect, // reaction doesn't expect async here
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{
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name: "".concat(display.id, "/").concat((0, _util.assembleLocString)(self.region), " rendering"),
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delay: display.renderDelay,
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fireImmediately: true
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}, this.setLoading, this.setRendered, this.setError);
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},
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setStatus: function setStatus(message) {
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self.status = message;
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},
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setLoading: function setLoading(abortController) {
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if (renderInProgress !== undefined) {
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if (!renderInProgress.signal.aborted) {
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renderInProgress.abort();
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}
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}
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self.filled = false;
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self.message = undefined;
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self.reactElement = undefined;
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self.features = undefined;
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self.layout = undefined;
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self.error = undefined;
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self.maxHeightReached = false;
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self.renderProps = undefined;
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renderInProgress = abortController;
|
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},
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setMessage: function setMessage(messageText) {
|
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|
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if (renderInProgress && !renderInProgress.signal.aborted) {
|
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renderInProgress.abort();
|
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|
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}
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self.filled = false;
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self.message = messageText;
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self.reactElement = undefined;
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self.layout = undefined;
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self.error = undefined;
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self.renderProps = undefined;
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renderInProgress = undefined;
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},
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setRendered: function setRendered(props) {
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if (!props) {
|
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return;
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}
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var reactElement = props.reactElement,
|
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features = props.features,
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layout = props.layout,
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maxHeightReached = props.maxHeightReached,
|
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|
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renderProps = props.renderProps;
|
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|
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self.filled = true;
|
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|
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self.message = undefined;
|
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|
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self.reactElement = reactElement;
|
|
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|
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self.features = features;
|
|
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|
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self.layout = layout;
|
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self.error = undefined;
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|
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self.maxHeightReached = maxHeightReached;
|
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|
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self.renderProps = renderProps;
|
|
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|
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renderInProgress = undefined;
|
|
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|
+
},
|
|
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|
+
setError: function setError(error) {
|
|
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|
+
console.error(error);
|
|
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|
+
|
|
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|
+
if (renderInProgress && !renderInProgress.signal.aborted) {
|
|
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|
+
renderInProgress.abort();
|
|
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|
+
} // the rendering failed for some reason
|
|
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|
+
|
|
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|
+
|
|
135
|
+
self.filled = false;
|
|
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|
+
self.message = undefined;
|
|
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|
+
self.reactElement = undefined;
|
|
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|
+
self.features = undefined;
|
|
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|
+
self.layout = undefined;
|
|
140
|
+
self.maxHeightReached = false;
|
|
141
|
+
self.error = error;
|
|
142
|
+
self.renderProps = undefined;
|
|
143
|
+
renderInProgress = undefined;
|
|
144
|
+
|
|
145
|
+
if ((0, _types.isRetryException)(error)) {
|
|
146
|
+
this.reload();
|
|
147
|
+
}
|
|
148
|
+
},
|
|
149
|
+
reload: function reload() {
|
|
150
|
+
self.renderInProgress = undefined;
|
|
151
|
+
self.filled = false;
|
|
152
|
+
self.reactElement = undefined;
|
|
153
|
+
self.features = undefined;
|
|
154
|
+
self.layout = undefined;
|
|
155
|
+
self.error = undefined;
|
|
156
|
+
self.message = undefined;
|
|
157
|
+
self.maxHeightReached = false;
|
|
158
|
+
self.ReactComponent = _ServerSideRenderedBlockContent["default"];
|
|
159
|
+
self.renderProps = undefined;
|
|
160
|
+
(0, _mobxStateTree.getParent)(self, 2).reload();
|
|
161
|
+
},
|
|
162
|
+
beforeDestroy: function beforeDestroy() {
|
|
163
|
+
if (renderInProgress && !renderInProgress.signal.aborted) {
|
|
164
|
+
renderInProgress.abort();
|
|
165
|
+
}
|
|
166
|
+
|
|
167
|
+
var display = (0, _util.getContainingDisplay)(self);
|
|
168
|
+
|
|
169
|
+
var _getSession = (0, _util.getSession)(self),
|
|
170
|
+
rpcManager = _getSession.rpcManager;
|
|
171
|
+
|
|
172
|
+
var rendererType = display.rendererType;
|
|
173
|
+
|
|
174
|
+
var _renderBlockData = renderBlockData((0, _mobxStateTree.cast)(self)),
|
|
175
|
+
renderArgs = _renderBlockData.renderArgs; // renderArgs can be undefined if an error occured in this block
|
|
176
|
+
|
|
177
|
+
|
|
178
|
+
if (renderArgs) {
|
|
179
|
+
rendererType.freeResourcesInClient(rpcManager, JSON.parse(JSON.stringify(renderArgs)))["catch"](function (e) {
|
|
180
|
+
// just console.error if it's something while it's being destroyed
|
|
181
|
+
console.warn('Error while destroying block', e);
|
|
182
|
+
});
|
|
183
|
+
}
|
|
184
|
+
}
|
|
185
|
+
};
|
|
186
|
+
});
|
|
187
|
+
|
|
188
|
+
var _default = blockState;
|
|
189
|
+
exports["default"] = _default;
|
|
190
|
+
|
|
191
|
+
// calls the render worker to render the block content not using a flow for
|
|
192
|
+
// this, because the flow doesn't work with autorun
|
|
193
|
+
function renderBlockData(self, optDisplay) {
|
|
194
|
+
try {
|
|
195
|
+
var display = optDisplay || (0, _util.getContainingDisplay)(self);
|
|
196
|
+
|
|
197
|
+
var _getSession2 = (0, _util.getSession)(display),
|
|
198
|
+
assemblyManager = _getSession2.assemblyManager,
|
|
199
|
+
rpcManager = _getSession2.rpcManager;
|
|
200
|
+
|
|
201
|
+
var adapterConfig = display.adapterConfig,
|
|
202
|
+
rendererType = display.rendererType,
|
|
203
|
+
error = display.error,
|
|
204
|
+
parentTrack = display.parentTrack;
|
|
205
|
+
var assemblyNames = (0, _tracks.getTrackAssemblyNames)(parentTrack);
|
|
206
|
+
var regionAsm = self.region.assemblyName;
|
|
207
|
+
|
|
208
|
+
if (!assemblyNames.includes(regionAsm) && !assemblyNames.find(function (name) {
|
|
209
|
+
var _assemblyManager$get;
|
|
210
|
+
|
|
211
|
+
return (_assemblyManager$get = assemblyManager.get(name)) === null || _assemblyManager$get === void 0 ? void 0 : _assemblyManager$get.hasName(regionAsm);
|
|
212
|
+
})) {
|
|
213
|
+
throw new Error("region assembly (".concat(regionAsm, ") does not match track assemblies (").concat(assemblyNames, ")"));
|
|
214
|
+
}
|
|
215
|
+
|
|
216
|
+
var renderProps = display.renderProps();
|
|
217
|
+
var config = renderProps.config; // This line is to trigger the mobx reaction when the config changes
|
|
218
|
+
// It won't trigger the reaction if it doesn't think we're accessing it
|
|
219
|
+
|
|
220
|
+
(0, _configuration.readConfObject)(config);
|
|
221
|
+
var sessionId = (0, _tracks.getRpcSessionId)(display);
|
|
222
|
+
var cannotBeRenderedReason = display.regionCannotBeRendered(self.region);
|
|
223
|
+
return {
|
|
224
|
+
rendererType: rendererType,
|
|
225
|
+
rpcManager: rpcManager,
|
|
226
|
+
renderProps: renderProps,
|
|
227
|
+
cannotBeRenderedReason: cannotBeRenderedReason,
|
|
228
|
+
displayError: error,
|
|
229
|
+
renderArgs: {
|
|
230
|
+
statusCallback: function statusCallback(message) {
|
|
231
|
+
if ((0, _mobxStateTree.isAlive)(self)) {
|
|
232
|
+
self.setStatus(message);
|
|
233
|
+
}
|
|
234
|
+
},
|
|
235
|
+
assemblyName: self.region.assemblyName,
|
|
236
|
+
regions: [self.region],
|
|
237
|
+
adapterConfig: adapterConfig,
|
|
238
|
+
rendererType: rendererType.name,
|
|
239
|
+
sessionId: sessionId,
|
|
240
|
+
blockKey: self.key,
|
|
241
|
+
reloadFlag: self.reloadFlag,
|
|
242
|
+
timeout: 1000000 // 10000,
|
|
243
|
+
|
|
244
|
+
}
|
|
245
|
+
};
|
|
246
|
+
} catch (e) {
|
|
247
|
+
return {
|
|
248
|
+
displayError: e
|
|
249
|
+
};
|
|
250
|
+
}
|
|
251
|
+
}
|
|
252
|
+
|
|
253
|
+
function renderBlockEffect(_x, _x2, _x3) {
|
|
254
|
+
return _renderBlockEffect.apply(this, arguments);
|
|
255
|
+
}
|
|
256
|
+
|
|
257
|
+
function _renderBlockEffect() {
|
|
258
|
+
_renderBlockEffect = (0, _asyncToGenerator2["default"])( /*#__PURE__*/_regenerator["default"].mark(function _callee(props, signal, self) {
|
|
259
|
+
var _ref, rendererType, renderProps, rpcManager, renderArgs, cannotBeRenderedReason, displayError, _yield$rendererType$r, reactElement, features, layout, maxHeightReached;
|
|
260
|
+
|
|
261
|
+
return _regenerator["default"].wrap(function _callee$(_context) {
|
|
262
|
+
while (1) {
|
|
263
|
+
switch (_context.prev = _context.next) {
|
|
264
|
+
case 0:
|
|
265
|
+
_ref = props, rendererType = _ref.rendererType, renderProps = _ref.renderProps, rpcManager = _ref.rpcManager, renderArgs = _ref.renderArgs, cannotBeRenderedReason = _ref.cannotBeRenderedReason, displayError = _ref.displayError;
|
|
266
|
+
|
|
267
|
+
if ((0, _mobxStateTree.isAlive)(self)) {
|
|
268
|
+
_context.next = 3;
|
|
269
|
+
break;
|
|
270
|
+
}
|
|
271
|
+
|
|
272
|
+
return _context.abrupt("return", undefined);
|
|
273
|
+
|
|
274
|
+
case 3:
|
|
275
|
+
if (!displayError) {
|
|
276
|
+
_context.next = 6;
|
|
277
|
+
break;
|
|
278
|
+
}
|
|
279
|
+
|
|
280
|
+
self.setError(displayError);
|
|
281
|
+
return _context.abrupt("return", undefined);
|
|
282
|
+
|
|
283
|
+
case 6:
|
|
284
|
+
if (!cannotBeRenderedReason) {
|
|
285
|
+
_context.next = 9;
|
|
286
|
+
break;
|
|
287
|
+
}
|
|
288
|
+
|
|
289
|
+
self.setMessage(cannotBeRenderedReason);
|
|
290
|
+
return _context.abrupt("return", undefined);
|
|
291
|
+
|
|
292
|
+
case 9:
|
|
293
|
+
if (!renderProps.notReady) {
|
|
294
|
+
_context.next = 11;
|
|
295
|
+
break;
|
|
296
|
+
}
|
|
297
|
+
|
|
298
|
+
return _context.abrupt("return", undefined);
|
|
299
|
+
|
|
300
|
+
case 11:
|
|
301
|
+
_context.next = 13;
|
|
302
|
+
return rendererType.renderInClient(rpcManager, _objectSpread(_objectSpread(_objectSpread({}, renderArgs), renderProps), {}, {
|
|
303
|
+
viewParams: (0, _util.getViewParams)(self),
|
|
304
|
+
signal: signal
|
|
305
|
+
}));
|
|
306
|
+
|
|
307
|
+
case 13:
|
|
308
|
+
_yield$rendererType$r = _context.sent;
|
|
309
|
+
reactElement = _yield$rendererType$r.reactElement;
|
|
310
|
+
features = _yield$rendererType$r.features;
|
|
311
|
+
layout = _yield$rendererType$r.layout;
|
|
312
|
+
maxHeightReached = _yield$rendererType$r.maxHeightReached;
|
|
313
|
+
return _context.abrupt("return", {
|
|
314
|
+
reactElement: reactElement,
|
|
315
|
+
features: features,
|
|
316
|
+
layout: layout,
|
|
317
|
+
maxHeightReached: maxHeightReached
|
|
318
|
+
});
|
|
319
|
+
|
|
320
|
+
case 19:
|
|
321
|
+
case "end":
|
|
322
|
+
return _context.stop();
|
|
323
|
+
}
|
|
324
|
+
}
|
|
325
|
+
}, _callee);
|
|
326
|
+
}));
|
|
327
|
+
return _renderBlockEffect.apply(this, arguments);
|
|
328
|
+
}
|
|
@@ -1,2 +1,2 @@
|
|
|
1
|
-
import PluginManager from '@jbrowse/core/PluginManager';
|
|
2
|
-
export declare function configSchemaFactory(pluginManager: PluginManager): import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
|
|
1
|
+
import PluginManager from '@jbrowse/core/PluginManager';
|
|
2
|
+
export declare function configSchemaFactory(pluginManager: PluginManager): import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
|
|
@@ -0,0 +1,19 @@
|
|
|
1
|
+
"use strict";
|
|
2
|
+
|
|
3
|
+
Object.defineProperty(exports, "__esModule", {
|
|
4
|
+
value: true
|
|
5
|
+
});
|
|
6
|
+
exports.configSchemaFactory = configSchemaFactory;
|
|
7
|
+
|
|
8
|
+
var _configuration = require("@jbrowse/core/configuration");
|
|
9
|
+
|
|
10
|
+
var _BaseLinearDisplay = require("../BaseLinearDisplay");
|
|
11
|
+
|
|
12
|
+
function configSchemaFactory(pluginManager) {
|
|
13
|
+
return (0, _configuration.ConfigurationSchema)('LinearBareDisplay', {
|
|
14
|
+
renderer: pluginManager.pluggableConfigSchemaType('renderer')
|
|
15
|
+
}, {
|
|
16
|
+
baseConfiguration: _BaseLinearDisplay.baseLinearDisplayConfigSchema,
|
|
17
|
+
explicitlyTyped: true
|
|
18
|
+
});
|
|
19
|
+
}
|
|
@@ -1,2 +1,2 @@
|
|
|
1
|
-
export { configSchemaFactory } from './configSchema';
|
|
2
|
-
export { stateModelFactory } from './model';
|
|
1
|
+
export { configSchemaFactory } from './configSchema';
|
|
2
|
+
export { stateModelFactory } from './model';
|
|
@@ -0,0 +1,21 @@
|
|
|
1
|
+
"use strict";
|
|
2
|
+
|
|
3
|
+
Object.defineProperty(exports, "__esModule", {
|
|
4
|
+
value: true
|
|
5
|
+
});
|
|
6
|
+
Object.defineProperty(exports, "configSchemaFactory", {
|
|
7
|
+
enumerable: true,
|
|
8
|
+
get: function get() {
|
|
9
|
+
return _configSchema.configSchemaFactory;
|
|
10
|
+
}
|
|
11
|
+
});
|
|
12
|
+
Object.defineProperty(exports, "stateModelFactory", {
|
|
13
|
+
enumerable: true,
|
|
14
|
+
get: function get() {
|
|
15
|
+
return _model.stateModelFactory;
|
|
16
|
+
}
|
|
17
|
+
});
|
|
18
|
+
|
|
19
|
+
var _configSchema = require("./configSchema");
|
|
20
|
+
|
|
21
|
+
var _model = require("./model");
|
|
@@ -0,0 +1,33 @@
|
|
|
1
|
+
"use strict";
|
|
2
|
+
|
|
3
|
+
var _mobxStateTree = require("mobx-state-tree");
|
|
4
|
+
|
|
5
|
+
var _configuration = require("@jbrowse/core/configuration");
|
|
6
|
+
|
|
7
|
+
var _ = require(".");
|
|
8
|
+
|
|
9
|
+
test('config schema renderer type', function () {
|
|
10
|
+
var stubPluginManager = {
|
|
11
|
+
pluggableConfigSchemaType: function pluggableConfigSchemaType(type) {
|
|
12
|
+
var one = (0, _configuration.ConfigurationSchema)("".concat(type, "_TypeOne"), {}, {
|
|
13
|
+
explicitlyTyped: true
|
|
14
|
+
});
|
|
15
|
+
var two = (0, _configuration.ConfigurationSchema)("".concat(type, "_TypeTwo"), {}, {
|
|
16
|
+
explicitlyTyped: true
|
|
17
|
+
});
|
|
18
|
+
var three = (0, _configuration.ConfigurationSchema)("".concat(type, "_TypeThree"), {}, {
|
|
19
|
+
explicitlyTyped: true
|
|
20
|
+
});
|
|
21
|
+
return _mobxStateTree.types.union(one, two, three);
|
|
22
|
+
}
|
|
23
|
+
};
|
|
24
|
+
var configSchema = (0, _.configSchemaFactory)(stubPluginManager);
|
|
25
|
+
var instance = configSchema.create({
|
|
26
|
+
type: 'LinearBareDisplay',
|
|
27
|
+
displayId: 'displayId0',
|
|
28
|
+
renderer: {
|
|
29
|
+
type: 'renderer_TypeTwo'
|
|
30
|
+
}
|
|
31
|
+
});
|
|
32
|
+
expect(instance.renderer.type).toBe('renderer_TypeTwo');
|
|
33
|
+
});
|