@jbrowse/plugin-wiggle 2.11.2 → 2.12.1

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (61) hide show
  1. package/dist/BigWigAdapter/BigWigAdapter.d.ts +1 -1
  2. package/dist/BigWigAdapter/index.js +1 -1
  3. package/dist/CreateMultiWiggleExtension/index.js +1 -1
  4. package/dist/DensityRenderer/index.js +1 -1
  5. package/dist/LinePlotRenderer/configSchema.d.ts +1 -3
  6. package/dist/LinePlotRenderer/index.js +1 -1
  7. package/dist/LinearWiggleDisplay/index.js +1 -1
  8. package/dist/LinearWiggleDisplay/models/configSchema.d.ts +1 -3
  9. package/dist/LinearWiggleDisplay/models/configSchema.js +1 -1
  10. package/dist/LinearWiggleDisplay/models/model.d.ts +52 -40
  11. package/dist/LinearWiggleDisplay/models/renderSvg.js +1 -2
  12. package/dist/MultiDensityRenderer/index.js +1 -1
  13. package/dist/MultiLineRenderer/index.js +1 -1
  14. package/dist/MultiLinearWiggleDisplay/components/DraggableDialog.js +31 -7
  15. package/dist/MultiLinearWiggleDisplay/components/SetColorDialog.js +1 -1
  16. package/dist/MultiLinearWiggleDisplay/components/SourcesGrid.js +9 -14
  17. package/dist/MultiLinearWiggleDisplay/components/util.js +3 -4
  18. package/dist/MultiLinearWiggleDisplay/index.js +1 -1
  19. package/dist/MultiLinearWiggleDisplay/models/configSchema.d.ts +1 -3
  20. package/dist/MultiLinearWiggleDisplay/models/configSchema.js +1 -1
  21. package/dist/MultiLinearWiggleDisplay/models/model.d.ts +44 -50
  22. package/dist/MultiLinearWiggleDisplay/models/model.js +1 -2
  23. package/dist/MultiLinearWiggleDisplay/models/renderSvg.js +1 -2
  24. package/dist/MultiQuantitativeTrack/index.js +1 -1
  25. package/dist/MultiRowLineRenderer/index.js +1 -1
  26. package/dist/MultiRowXYPlotRenderer/configSchema.d.ts +0 -3
  27. package/dist/MultiRowXYPlotRenderer/index.js +1 -1
  28. package/dist/MultiWiggleAdapter/index.js +1 -1
  29. package/dist/MultiWiggleAddTrackWorkflow/AddTrackWorkflow.js +5 -2
  30. package/dist/MultiWiggleAddTrackWorkflow/index.js +1 -1
  31. package/dist/MultiXYPlotRenderer/index.js +1 -1
  32. package/dist/QuantitativeTrack/index.js +1 -1
  33. package/dist/WiggleBaseRenderer.d.ts +5 -6
  34. package/dist/XYPlotRenderer/index.js +1 -1
  35. package/dist/drawDensity.js +1 -2
  36. package/dist/drawLine.js +1 -2
  37. package/dist/drawXY.js +1 -2
  38. package/dist/index.d.ts +1 -822
  39. package/dist/shared/SetMinMaxDialog.js +1 -1
  40. package/dist/shared/configShared.d.ts +1 -3
  41. package/dist/shared/configShared.js +1 -1
  42. package/dist/shared/modelShared.d.ts +49 -55
  43. package/dist/shared/modelShared.js +1 -1
  44. package/dist/util.d.ts +1 -0
  45. package/dist/util.js +9 -9
  46. package/esm/BigWigAdapter/BigWigAdapter.d.ts +1 -1
  47. package/esm/LinePlotRenderer/configSchema.d.ts +1 -3
  48. package/esm/LinearWiggleDisplay/models/configSchema.d.ts +1 -3
  49. package/esm/LinearWiggleDisplay/models/model.d.ts +52 -40
  50. package/esm/MultiLinearWiggleDisplay/components/DraggableDialog.js +8 -7
  51. package/esm/MultiLinearWiggleDisplay/components/SourcesGrid.js +9 -14
  52. package/esm/MultiLinearWiggleDisplay/models/configSchema.d.ts +1 -3
  53. package/esm/MultiLinearWiggleDisplay/models/model.d.ts +44 -50
  54. package/esm/MultiRowXYPlotRenderer/configSchema.d.ts +0 -3
  55. package/esm/MultiWiggleAddTrackWorkflow/AddTrackWorkflow.js +4 -1
  56. package/esm/WiggleBaseRenderer.d.ts +5 -6
  57. package/esm/index.d.ts +1 -822
  58. package/esm/shared/configShared.d.ts +1 -3
  59. package/esm/shared/modelShared.d.ts +49 -55
  60. package/esm/util.d.ts +1 -0
  61. package/package.json +2 -2
package/esm/index.d.ts CHANGED
@@ -1,4 +1,3 @@
1
- /// <reference types="react" />
2
1
  import Plugin from '@jbrowse/core/Plugin';
3
2
  import PluginManager from '@jbrowse/core/PluginManager';
4
3
  import WiggleBaseRenderer from './WiggleBaseRenderer';
@@ -10,827 +9,7 @@ export default class WigglePlugin extends Plugin {
10
9
  install(pm: PluginManager): void;
11
10
  exports: {
12
11
  LinearWiggleDisplayReactComponent: (props: {
13
- model: {
14
- id: string;
15
- type: "LinearWiggleDisplay";
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- rpcDriverName: string | undefined;
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- heightPreConfig: number | undefined;
18
- userBpPerPxLimit: number | undefined;
19
- userByteSizeLimit: number | undefined;
20
- blockState: import("mobx-state-tree").IMSTMap<import("mobx-state-tree").IModelType<{
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- key: import("mobx-state-tree").ISimpleType<string>;
22
- 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>;
33
- isLeftEndOfDisplayedRegion: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
34
- isRightEndOfDisplayedRegion: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
35
- }, {
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- renderInProgress: AbortController | undefined;
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- filled: boolean;
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- reactElement: import("react").ReactElement<any, string | import("react").JSXElementConstructor<any>> | undefined;
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- features: Map<string, import("@jbrowse/core/util").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, }: {
46
- model: {
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- error?: unknown;
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- reload: () => void;
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- message: import("react").ReactNode;
50
- filled?: boolean | undefined;
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- status?: string | undefined;
52
- reactElement?: import("react").ReactElement<any, string | import("react").JSXElementConstructor<any>> | undefined;
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- };
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- }) => import("react").JSX.Element | undefined;
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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;
60
- setLoading(abortController: AbortController): void;
61
- setMessage(messageText: string): void;
62
- setRendered(props: {
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- reactElement: import("react").ReactElement<any, string | import("react").JSXElementConstructor<any>>;
64
- features: Map<string, import("@jbrowse/core/util").Feature>;
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- layout: any;
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- maxHeightReached: boolean;
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- renderProps: any;
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- } | undefined): void;
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- setError(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>> & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IMapType<import("mobx-state-tree").IModelType<{
73
- key: import("mobx-state-tree").ISimpleType<string>;
74
- region: import("mobx-state-tree").IModelType<{
75
- refName: import("mobx-state-tree").ISimpleType<string>;
76
- start: import("mobx-state-tree").ISimpleType<number>;
77
- end: import("mobx-state-tree").ISimpleType<number>;
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- reversed: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
79
- } & {
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- assemblyName: import("mobx-state-tree").ISimpleType<string>;
81
- }, {
82
- setRefName(newRefName: string): void;
83
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
84
- reloadFlag: import("mobx-state-tree").IType<number | undefined, number, number>;
85
- isLeftEndOfDisplayedRegion: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
86
- isRightEndOfDisplayedRegion: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
87
- }, {
88
- renderInProgress: AbortController | undefined;
89
- filled: boolean;
90
- reactElement: import("react").ReactElement<any, string | import("react").JSXElementConstructor<any>> | undefined;
91
- features: Map<string, import("@jbrowse/core/util").Feature> | undefined;
92
- layout: any;
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- status: string;
94
- error: unknown;
95
- message: string | undefined;
96
- maxHeightReached: boolean;
97
- ReactComponent: ({ model, }: {
98
- model: {
99
- error?: unknown;
100
- reload: () => void;
101
- message: import("react").ReactNode;
102
- filled?: boolean | undefined;
103
- status?: string | undefined;
104
- reactElement?: import("react").ReactElement<any, string | import("react").JSXElementConstructor<any>> | undefined;
105
- };
106
- }) => import("react").JSX.Element | undefined;
107
- renderProps: any;
108
- } & {
109
- doReload(): void;
110
- afterAttach(): void;
111
- setStatus(message: string): void;
112
- setLoading(abortController: AbortController): void;
113
- setMessage(messageText: string): void;
114
- setRendered(props: {
115
- reactElement: import("react").ReactElement<any, string | import("react").JSXElementConstructor<any>>;
116
- features: Map<string, import("@jbrowse/core/util").Feature>;
117
- layout: any;
118
- maxHeightReached: boolean;
119
- renderProps: any;
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- } | undefined): void;
121
- setError(error: unknown): void;
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- reload(): void;
123
- beforeDestroy(): void;
124
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>>;
125
- configuration: {
126
- [x: string]: any;
127
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
128
- setSubschema(slotName: string, data: unknown): any;
129
- } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
130
- maxFeatureScreenDensity: {
131
- type: string;
132
- description: string;
133
- defaultValue: number;
134
- };
135
- fetchSizeLimit: {
136
- type: string;
137
- defaultValue: number;
138
- description: string;
139
- };
140
- height: {
141
- type: string;
142
- defaultValue: number;
143
- description: string;
144
- };
145
- mouseover: {
146
- type: string;
147
- description: string;
148
- defaultValue: string;
149
- contextVariable: string[];
150
- };
151
- jexlFilters: {
152
- type: string;
153
- description: string;
154
- defaultValue: never[];
155
- };
156
- }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "displayId">> & import("@jbrowse/core/configuration").AnyConfigurationSchemaType>;
157
- selectedRendering: string;
158
- resolution: number;
159
- fill: boolean | undefined;
160
- minSize: number | undefined;
161
- color: string | undefined;
162
- posColor: string | undefined;
163
- negColor: string | undefined;
164
- summaryScoreMode: string | undefined;
165
- rendererTypeNameState: string | undefined;
166
- scale: string | undefined;
167
- autoscale: string | undefined;
168
- displayCrossHatches: boolean | undefined;
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- constraints: {
170
- max: number | undefined;
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- min: number | undefined;
172
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IModelType<{
173
- max: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
174
- min: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
175
- }, {}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>, [undefined]>>;
176
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
177
- rendererTypeName: string;
178
- error: unknown;
179
- message: string | undefined;
180
- } & {
181
- readonly RenderingComponent: import("react").FC<{
182
- model: {
183
- id: string;
184
- type: string;
185
- rpcDriverName: string | undefined;
186
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
187
- rendererTypeName: string;
188
- error: unknown;
189
- message: string | undefined;
190
- } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
191
- id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
192
- type: import("mobx-state-tree").ISimpleType<string>;
193
- rpcDriverName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
194
- }, {
195
- rendererTypeName: string;
196
- error: unknown;
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- message: string | undefined;
198
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
199
- onHorizontalScroll?: Function | undefined;
200
- blockState?: Record<string, any> | undefined;
201
- }>;
202
- readonly DisplayBlurb: import("react").FC<{
203
- model: {
204
- id: string;
205
- type: string;
206
- rpcDriverName: string | undefined;
207
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
208
- rendererTypeName: string;
209
- error: unknown;
210
- message: string | undefined;
211
- } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
212
- id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
213
- type: import("mobx-state-tree").ISimpleType<string>;
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- rpcDriverName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
215
- }, {
216
- rendererTypeName: string;
217
- error: unknown;
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- message: string | undefined;
219
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
220
- }> | null;
221
- readonly adapterConfig: any;
222
- readonly parentTrack: any;
223
- renderProps(): any;
224
- readonly rendererType: import("@jbrowse/core/pluggableElementTypes").RendererType;
225
- readonly DisplayMessageComponent: import("react").FC<any> | undefined;
226
- trackMenuItems(): import("@jbrowse/core/ui").MenuItem[];
227
- readonly viewMenuActions: import("@jbrowse/core/ui").MenuItem[];
228
- regionCannotBeRendered(): null;
229
- } & {
230
- setMessage(arg?: string | undefined): void;
231
- setError(error?: unknown): void;
232
- setRpcDriverName(rpcDriverName: string): void;
233
- reload(): void;
234
- } & {
235
- scrollTop: number;
236
- } & {
237
- readonly height: number;
238
- } & {
239
- setScrollTop(scrollTop: number): void;
240
- setHeight(displayHeight: number): number;
241
- resizeHeight(distance: number): number;
242
- } & {
243
- featureDensityStatsP: Promise<import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats> | undefined;
244
- featureDensityStats: import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats | undefined;
245
- currStatsBpPerPx: number;
246
- } & {
247
- readonly currentBytesRequested: number;
248
- readonly currentFeatureScreenDensity: number;
249
- readonly maxFeatureScreenDensity: any;
250
- readonly featureDensityStatsReady: boolean;
251
- readonly maxAllowableBytes: number;
252
- } & {
253
- afterAttach(): void;
254
- } & {
255
- setCurrStatsBpPerPx(n: number): void;
256
- setFeatureDensityStatsLimit(stats?: import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats | undefined): void;
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- getFeatureDensityStats(): Promise<import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats>;
258
- setFeatureDensityStatsP(arg: any): void;
259
- setFeatureDensityStats(featureDensityStats?: import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats | undefined): void;
260
- clearFeatureDensityStats(): void;
261
- } & {
262
- readonly regionTooLarge: boolean;
263
- readonly regionTooLargeReason: string;
264
- } & {
265
- regionCannotBeRenderedText(_region: import("@jbrowse/core/util/types").Region): "" | "Force load to see features";
266
- regionCannotBeRendered(_region: import("@jbrowse/core/util/types").Region): import("react").JSX.Element | null;
267
- } & {
268
- featureIdUnderMouse: string | undefined;
269
- contextMenuFeature: import("@jbrowse/core/util").Feature | undefined;
270
- } & {
271
- readonly blockType: "dynamicBlocks" | "staticBlocks";
272
- readonly blockDefinitions: import("@jbrowse/core/util/blockTypes").BlockSet;
273
- } & {
274
- readonly renderDelay: number;
275
- readonly TooltipComponent: import("react").FC<any>;
276
- readonly selectedFeatureId: string | undefined;
277
- readonly DisplayMessageComponent: import("react").FC<any> | undefined;
278
- } & {
279
- readonly features: import("@jbrowse/core/util/compositeMap").default<string, import("@jbrowse/core/util").Feature>;
280
- readonly featureUnderMouse: import("@jbrowse/core/util").Feature | undefined;
281
- getFeatureOverlapping(blockKey: string, x: number, y: number): string | undefined;
282
- getFeatureByID(blockKey: string, id: string): [number, number, number, number] | undefined;
283
- searchFeatureByID(id: string): [number, number, number, number] | undefined;
284
- } & {
285
- addBlock(key: string, block: import("@jbrowse/core/util/blockTypes").BaseBlock): void;
286
- deleteBlock(key: string): void;
287
- selectFeature(feature: import("@jbrowse/core/util").Feature): void;
288
- navToFeature(feature: import("@jbrowse/core/util").Feature): void;
289
- clearFeatureSelection(): void;
290
- setFeatureIdUnderMouse(feature?: string | undefined): void;
291
- setContextMenuFeature(feature?: import("@jbrowse/core/util").Feature | undefined): void;
292
- } & {
293
- reload(): Promise<void>;
294
- } & {
295
- trackMenuItems(): import("@jbrowse/core/ui").MenuItem[];
296
- contextMenuItems(): import("@jbrowse/core/ui").MenuItem[];
297
- renderProps(): any;
298
- } & {
299
- renderSvg(opts: import("@jbrowse/plugin-linear-genome-view").ExportSvgDisplayOptions): Promise<import("react").JSX.Element>;
300
- afterAttach(): void;
301
- } & {
302
- message: string | undefined;
303
- stats: {
304
- scoreMin: number;
305
- scoreMax: number;
306
- } | undefined;
307
- statsFetchInProgress: AbortController | undefined;
308
- } & {
309
- updateQuantitativeStats(stats: {
310
- scoreMin: number;
311
- scoreMax: number;
312
- }): void;
313
- setColor(color?: string | undefined): void;
314
- setPosColor(color?: string | undefined): void;
315
- setNegColor(color?: string | undefined): void;
316
- setLoading(aborter: AbortController): void;
317
- selectFeature(feature: import("@jbrowse/core/util").Feature): void;
318
- setResolution(res: number): void;
319
- setFill(fill: number): void;
320
- toggleLogScale(): void;
321
- setScaleType(scale?: string | undefined): void;
322
- setSummaryScoreMode(val: string): void;
323
- setAutoscale(val: string): void;
324
- setMaxScore(val?: number | undefined): void;
325
- setRendererType(val: string): void;
326
- setMinScore(val?: number | undefined): void;
327
- toggleCrossHatches(): void;
328
- setCrossHatches(cross: boolean): void;
329
- } & {
330
- readonly adapterTypeName: any;
331
- readonly rendererTypeNameSimple: any;
332
- readonly filters: undefined;
333
- readonly scaleType: any;
334
- readonly maxScore: any;
335
- readonly minScore: any;
336
- } & {
337
- readonly adapterCapabilities: string[];
338
- readonly rendererConfig: {
339
- [x: string]: any;
340
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
341
- setSubschema(slotName: string, data: unknown): any;
342
- } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>;
343
- readonly autoscaleType: any;
344
- } & {
345
- readonly domain: number[] | undefined;
346
- } & {
347
- readonly filled: boolean;
348
- readonly summaryScoreModeSetting: string;
349
- readonly scaleOpts: {
350
- domain: number[] | undefined;
351
- stats: {
352
- scoreMin: number;
353
- scoreMax: number;
354
- } | undefined;
355
- autoscaleType: any;
356
- scaleType: any;
357
- inverted: any;
358
- };
359
- readonly canHaveFill: boolean;
360
- readonly displayCrossHatchesSetting: boolean;
361
- readonly hasResolution: boolean;
362
- readonly hasGlobalStats: boolean;
363
- } & {
364
- scoreTrackMenuItems(): ({
365
- label: string;
366
- subMenu: {
367
- label: string;
368
- onClick: () => void;
369
- }[];
370
- onClick?: undefined;
371
- } | {
372
- label: string;
373
- subMenu: {
374
- label: string;
375
- type: string;
376
- checked: boolean;
377
- onClick: () => void;
378
- }[];
379
- onClick?: undefined;
380
- } | {
381
- label: string;
382
- onClick: () => void;
383
- subMenu?: undefined;
384
- })[];
385
- } & {
386
- reload(): Promise<void>;
387
- } & {
388
- readonly TooltipComponent: import("react").FC<{}>;
389
- readonly rendererTypeName: string;
390
- } & {
391
- readonly ticks: {
392
- range: number[];
393
- values: number[];
394
- format: (d: import("d3-scale").NumberValue) => string;
395
- position: import("d3-scale").ScaleLinear<number, number, never> | import("d3-scale").ScaleQuantize<number, never>;
396
- } | undefined;
397
- } & {
398
- renderProps(): any;
399
- readonly needsScalebar: boolean;
400
- readonly fillSetting: 2 | 0 | 1;
401
- } & {
402
- trackMenuItems(): (import("@jbrowse/core/ui").MenuDivider | import("@jbrowse/core/ui").MenuSubHeader | import("@jbrowse/core/ui").NormalMenuItem | import("@jbrowse/core/ui").CheckboxMenuItem | import("@jbrowse/core/ui").RadioMenuItem | import("@jbrowse/core/ui").SubMenuItem | {
403
- label: string;
404
- subMenu: ({
405
- label: string;
406
- subMenu: {
407
- label: string;
408
- onClick: () => void;
409
- }[];
410
- onClick?: undefined;
411
- } | {
412
- label: string;
413
- subMenu: {
414
- label: string;
415
- type: string;
416
- checked: boolean;
417
- onClick: () => void;
418
- }[];
419
- onClick?: undefined;
420
- } | {
421
- label: string;
422
- onClick: () => void;
423
- subMenu?: undefined;
424
- })[];
425
- type?: undefined;
426
- checked?: undefined;
427
- onClick?: undefined;
428
- } | {
429
- label: string;
430
- subMenu: {
431
- label: string;
432
- type: string;
433
- checked: boolean;
434
- onClick: () => void;
435
- }[];
436
- type?: undefined;
437
- checked?: undefined;
438
- onClick?: undefined;
439
- } | {
440
- type: string;
441
- label: string;
442
- checked: boolean;
443
- onClick: () => void;
444
- subMenu?: undefined;
445
- })[];
446
- } & {
447
- afterAttach(): void;
448
- renderSvg(opts: import("@jbrowse/plugin-linear-genome-view").ExportSvgDisplayOptions): Promise<import("react").JSX.Element>;
449
- } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
450
- id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
451
- type: import("mobx-state-tree").ISimpleType<string>;
452
- rpcDriverName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
453
- } & {
454
- heightPreConfig: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
455
- } & {
456
- userBpPerPxLimit: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
457
- userByteSizeLimit: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
458
- } & {
459
- blockState: import("mobx-state-tree").IMapType<import("mobx-state-tree").IModelType<{
460
- key: import("mobx-state-tree").ISimpleType<string>;
461
- region: import("mobx-state-tree").IModelType<{
462
- refName: import("mobx-state-tree").ISimpleType<string>;
463
- start: import("mobx-state-tree").ISimpleType<number>;
464
- end: import("mobx-state-tree").ISimpleType<number>;
465
- reversed: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
466
- } & {
467
- assemblyName: import("mobx-state-tree").ISimpleType<string>;
468
- }, {
469
- setRefName(newRefName: string): void;
470
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
471
- reloadFlag: import("mobx-state-tree").IType<number | undefined, number, number>;
472
- isLeftEndOfDisplayedRegion: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
473
- isRightEndOfDisplayedRegion: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
474
- }, {
475
- renderInProgress: AbortController | undefined;
476
- filled: boolean;
477
- reactElement: import("react").ReactElement<any, string | import("react").JSXElementConstructor<any>> | undefined;
478
- features: Map<string, import("@jbrowse/core/util").Feature> | undefined;
479
- layout: any;
480
- status: string;
481
- error: unknown;
482
- message: string | undefined;
483
- maxHeightReached: boolean;
484
- ReactComponent: ({ model, }: {
485
- model: {
486
- error?: unknown;
487
- reload: () => void;
488
- message: import("react").ReactNode;
489
- filled?: boolean | undefined;
490
- status?: string | undefined;
491
- reactElement?: import("react").ReactElement<any, string | import("react").JSXElementConstructor<any>> | undefined;
492
- };
493
- }) => import("react").JSX.Element | undefined;
494
- renderProps: any;
495
- } & {
496
- doReload(): void;
497
- afterAttach(): void;
498
- setStatus(message: string): void;
499
- setLoading(abortController: AbortController): void;
500
- setMessage(messageText: string): void;
501
- setRendered(props: {
502
- reactElement: import("react").ReactElement<any, string | import("react").JSXElementConstructor<any>>;
503
- features: Map<string, import("@jbrowse/core/util").Feature>;
504
- layout: any;
505
- maxHeightReached: boolean;
506
- renderProps: any;
507
- } | undefined): void;
508
- setError(error: unknown): void;
509
- reload(): void;
510
- beforeDestroy(): void;
511
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
512
- configuration: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
513
- maxFeatureScreenDensity: {
514
- type: string;
515
- description: string;
516
- defaultValue: number;
517
- };
518
- fetchSizeLimit: {
519
- type: string;
520
- defaultValue: number;
521
- description: string;
522
- };
523
- height: {
524
- type: string;
525
- defaultValue: number;
526
- description: string;
527
- };
528
- mouseover: {
529
- type: string;
530
- description: string;
531
- defaultValue: string;
532
- contextVariable: string[];
533
- };
534
- jexlFilters: {
535
- type: string;
536
- description: string;
537
- defaultValue: never[];
538
- };
539
- }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "displayId">>;
540
- } & {
541
- selectedRendering: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
542
- resolution: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<number>, [undefined]>;
543
- fill: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<boolean>>;
544
- minSize: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
545
- color: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
546
- posColor: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
547
- negColor: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
548
- summaryScoreMode: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
549
- rendererTypeNameState: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
550
- scale: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
551
- autoscale: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
552
- displayCrossHatches: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<boolean>>;
553
- constraints: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IModelType<{
554
- max: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
555
- min: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
556
- }, {}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>, [undefined]>;
557
- configuration: import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
558
- } & {
559
- type: import("mobx-state-tree").ISimpleType<"LinearWiggleDisplay">;
560
- }, {
561
- rendererTypeName: string;
562
- error: unknown;
563
- message: string | undefined;
564
- } & {
565
- readonly RenderingComponent: import("react").FC<{
566
- model: {
567
- id: string;
568
- type: string;
569
- rpcDriverName: string | undefined;
570
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
571
- rendererTypeName: string;
572
- error: unknown;
573
- message: string | undefined;
574
- } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
575
- id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
576
- type: import("mobx-state-tree").ISimpleType<string>;
577
- rpcDriverName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
578
- }, {
579
- rendererTypeName: string;
580
- error: unknown;
581
- message: string | undefined;
582
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
583
- onHorizontalScroll?: Function | undefined;
584
- blockState?: Record<string, any> | undefined;
585
- }>;
586
- readonly DisplayBlurb: import("react").FC<{
587
- model: {
588
- id: string;
589
- type: string;
590
- rpcDriverName: string | undefined;
591
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
592
- rendererTypeName: string;
593
- error: unknown;
594
- message: string | undefined;
595
- } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
596
- id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
597
- type: import("mobx-state-tree").ISimpleType<string>;
598
- rpcDriverName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
599
- }, {
600
- rendererTypeName: string;
601
- error: unknown;
602
- message: string | undefined;
603
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
604
- }> | null;
605
- readonly adapterConfig: any;
606
- readonly parentTrack: any;
607
- renderProps(): any;
608
- readonly rendererType: import("@jbrowse/core/pluggableElementTypes").RendererType;
609
- readonly DisplayMessageComponent: import("react").FC<any> | undefined;
610
- trackMenuItems(): import("@jbrowse/core/ui").MenuItem[];
611
- readonly viewMenuActions: import("@jbrowse/core/ui").MenuItem[];
612
- regionCannotBeRendered(): null;
613
- } & {
614
- setMessage(arg?: string | undefined): void;
615
- setError(error?: unknown): void;
616
- setRpcDriverName(rpcDriverName: string): void;
617
- reload(): void;
618
- } & {
619
- scrollTop: number;
620
- } & {
621
- readonly height: number;
622
- } & {
623
- setScrollTop(scrollTop: number): void;
624
- setHeight(displayHeight: number): number;
625
- resizeHeight(distance: number): number;
626
- } & {
627
- featureDensityStatsP: Promise<import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats> | undefined;
628
- featureDensityStats: import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats | undefined;
629
- currStatsBpPerPx: number;
630
- } & {
631
- readonly currentBytesRequested: number;
632
- readonly currentFeatureScreenDensity: number;
633
- readonly maxFeatureScreenDensity: any;
634
- readonly featureDensityStatsReady: boolean;
635
- readonly maxAllowableBytes: number;
636
- } & {
637
- afterAttach(): void;
638
- } & {
639
- setCurrStatsBpPerPx(n: number): void;
640
- setFeatureDensityStatsLimit(stats?: import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats | undefined): void;
641
- getFeatureDensityStats(): Promise<import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats>;
642
- setFeatureDensityStatsP(arg: any): void;
643
- setFeatureDensityStats(featureDensityStats?: import("@jbrowse/core/data_adapters/BaseAdapter").FeatureDensityStats | undefined): void;
644
- clearFeatureDensityStats(): void;
645
- } & {
646
- readonly regionTooLarge: boolean;
647
- readonly regionTooLargeReason: string;
648
- } & {
649
- regionCannotBeRenderedText(_region: import("@jbrowse/core/util/types").Region): "" | "Force load to see features";
650
- regionCannotBeRendered(_region: import("@jbrowse/core/util/types").Region): import("react").JSX.Element | null;
651
- } & {
652
- featureIdUnderMouse: string | undefined;
653
- contextMenuFeature: import("@jbrowse/core/util").Feature | undefined;
654
- } & {
655
- readonly blockType: "dynamicBlocks" | "staticBlocks";
656
- readonly blockDefinitions: import("@jbrowse/core/util/blockTypes").BlockSet;
657
- } & {
658
- readonly renderDelay: number;
659
- readonly TooltipComponent: import("react").FC<any>;
660
- readonly selectedFeatureId: string | undefined;
661
- readonly DisplayMessageComponent: import("react").FC<any> | undefined;
662
- } & {
663
- readonly features: import("@jbrowse/core/util/compositeMap").default<string, import("@jbrowse/core/util").Feature>;
664
- readonly featureUnderMouse: import("@jbrowse/core/util").Feature | undefined;
665
- getFeatureOverlapping(blockKey: string, x: number, y: number): string | undefined;
666
- getFeatureByID(blockKey: string, id: string): [number, number, number, number] | undefined;
667
- searchFeatureByID(id: string): [number, number, number, number] | undefined;
668
- } & {
669
- addBlock(key: string, block: import("@jbrowse/core/util/blockTypes").BaseBlock): void;
670
- deleteBlock(key: string): void;
671
- selectFeature(feature: import("@jbrowse/core/util").Feature): void;
672
- navToFeature(feature: import("@jbrowse/core/util").Feature): void;
673
- clearFeatureSelection(): void;
674
- setFeatureIdUnderMouse(feature?: string | undefined): void;
675
- setContextMenuFeature(feature?: import("@jbrowse/core/util").Feature | undefined): void;
676
- } & {
677
- reload(): Promise<void>;
678
- } & {
679
- trackMenuItems(): import("@jbrowse/core/ui").MenuItem[];
680
- contextMenuItems(): import("@jbrowse/core/ui").MenuItem[];
681
- renderProps(): any;
682
- } & {
683
- renderSvg(opts: import("@jbrowse/plugin-linear-genome-view").ExportSvgDisplayOptions): Promise<import("react").JSX.Element>;
684
- afterAttach(): void;
685
- } & {
686
- message: string | undefined;
687
- stats: {
688
- scoreMin: number;
689
- scoreMax: number;
690
- } | undefined;
691
- statsFetchInProgress: AbortController | undefined;
692
- } & {
693
- updateQuantitativeStats(stats: {
694
- scoreMin: number;
695
- scoreMax: number;
696
- }): void;
697
- setColor(color?: string | undefined): void;
698
- setPosColor(color?: string | undefined): void;
699
- setNegColor(color?: string | undefined): void;
700
- setLoading(aborter: AbortController): void;
701
- selectFeature(feature: import("@jbrowse/core/util").Feature): void;
702
- setResolution(res: number): void;
703
- setFill(fill: number): void;
704
- toggleLogScale(): void;
705
- setScaleType(scale?: string | undefined): void;
706
- setSummaryScoreMode(val: string): void;
707
- setAutoscale(val: string): void;
708
- setMaxScore(val?: number | undefined): void;
709
- setRendererType(val: string): void;
710
- setMinScore(val?: number | undefined): void;
711
- toggleCrossHatches(): void;
712
- setCrossHatches(cross: boolean): void;
713
- } & {
714
- readonly adapterTypeName: any;
715
- readonly rendererTypeNameSimple: any;
716
- readonly filters: undefined;
717
- readonly scaleType: any;
718
- readonly maxScore: any;
719
- readonly minScore: any;
720
- } & {
721
- readonly adapterCapabilities: string[];
722
- readonly rendererConfig: {
723
- [x: string]: any;
724
- } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
725
- setSubschema(slotName: string, data: unknown): any;
726
- } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>;
727
- readonly autoscaleType: any;
728
- } & {
729
- readonly domain: number[] | undefined;
730
- } & {
731
- readonly filled: boolean;
732
- readonly summaryScoreModeSetting: string;
733
- readonly scaleOpts: {
734
- domain: number[] | undefined;
735
- stats: {
736
- scoreMin: number;
737
- scoreMax: number;
738
- } | undefined;
739
- autoscaleType: any;
740
- scaleType: any;
741
- inverted: any;
742
- };
743
- readonly canHaveFill: boolean;
744
- readonly displayCrossHatchesSetting: boolean;
745
- readonly hasResolution: boolean;
746
- readonly hasGlobalStats: boolean;
747
- } & {
748
- scoreTrackMenuItems(): ({
749
- label: string;
750
- subMenu: {
751
- label: string;
752
- onClick: () => void;
753
- }[];
754
- onClick?: undefined;
755
- } | {
756
- label: string;
757
- subMenu: {
758
- label: string;
759
- type: string;
760
- checked: boolean;
761
- onClick: () => void;
762
- }[];
763
- onClick?: undefined;
764
- } | {
765
- label: string;
766
- onClick: () => void;
767
- subMenu?: undefined;
768
- })[];
769
- } & {
770
- reload(): Promise<void>;
771
- } & {
772
- readonly TooltipComponent: import("react").FC<{}>;
773
- readonly rendererTypeName: string;
774
- } & {
775
- readonly ticks: {
776
- range: number[];
777
- values: number[];
778
- format: (d: import("d3-scale").NumberValue) => string;
779
- position: import("d3-scale").ScaleLinear<number, number, never> | import("d3-scale").ScaleQuantize<number, never>;
780
- } | undefined;
781
- } & {
782
- renderProps(): any;
783
- readonly needsScalebar: boolean;
784
- readonly fillSetting: 2 | 0 | 1;
785
- } & {
786
- trackMenuItems(): (import("@jbrowse/core/ui").MenuDivider | import("@jbrowse/core/ui").MenuSubHeader | import("@jbrowse/core/ui").NormalMenuItem | import("@jbrowse/core/ui").CheckboxMenuItem | import("@jbrowse/core/ui").RadioMenuItem | import("@jbrowse/core/ui").SubMenuItem | {
787
- label: string;
788
- subMenu: ({
789
- label: string;
790
- subMenu: {
791
- label: string;
792
- onClick: () => void;
793
- }[];
794
- onClick?: undefined;
795
- } | {
796
- label: string;
797
- subMenu: {
798
- label: string;
799
- type: string;
800
- checked: boolean;
801
- onClick: () => void;
802
- }[];
803
- onClick?: undefined;
804
- } | {
805
- label: string;
806
- onClick: () => void;
807
- subMenu?: undefined;
808
- })[];
809
- type?: undefined;
810
- checked?: undefined;
811
- onClick?: undefined;
812
- } | {
813
- label: string;
814
- subMenu: {
815
- label: string;
816
- type: string;
817
- checked: boolean;
818
- onClick: () => void;
819
- }[];
820
- type?: undefined;
821
- checked?: undefined;
822
- onClick?: undefined;
823
- } | {
824
- type: string;
825
- label: string;
826
- checked: boolean;
827
- onClick: () => void;
828
- subMenu?: undefined;
829
- })[];
830
- } & {
831
- afterAttach(): void;
832
- renderSvg(opts: import("@jbrowse/plugin-linear-genome-view").ExportSvgDisplayOptions): Promise<import("react").JSX.Element>;
833
- }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
12
+ model: import("./LinearWiggleDisplay/models/model").WiggleDisplayModel;
834
13
  }) => import("react").JSX.Element;
835
14
  XYPlotRendererReactComponent: (props: {
836
15
  regions: import("@jbrowse/core/util/types").Region[];