@jbrowse/core 5.0.0-beta.10 → 5.0.0-beta.11
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/README.md +113 -5
- package/esm/BaseFeatureWidget/BaseFeatureDetail/ArrayValue.js +0 -2
- package/esm/BaseFeatureWidget/BaseFeatureDetail/BasicValue.js +22 -6
- package/esm/BaseFeatureWidget/BaseFeatureDetail/jexlFilterActions.js +3 -4
- package/esm/BaseFeatureWidget/SequenceFeatureDetails/useSequenceData.js +8 -5
- package/esm/CorePlugin.js +32 -1
- package/esm/ReExports/coreModules.generated.js +248 -246
- package/esm/ReExports/coreWorkerModules.generated.js +246 -244
- package/esm/ReExports/list.js +3 -2
- package/esm/configuration/index.d.ts +2 -0
- package/esm/configuration/index.js +1 -0
- package/esm/configuration/plot.d.ts +61 -0
- package/esm/configuration/plot.js +142 -0
- package/esm/pluggableElementTypes/DisplayType.d.ts +7 -0
- package/esm/pluggableElementTypes/DisplayType.js +6 -0
- package/esm/pluggableElementTypes/WidgetType.d.ts +6 -0
- package/esm/pluggableElementTypes/WidgetType.js +6 -0
- package/esm/pluggableElementTypes/index.js +1 -8
- package/esm/pluggableElementTypes/models/BaseDisplayModel.d.ts +57 -1
- package/esm/pluggableElementTypes/models/BaseDisplayModel.js +84 -2
- package/esm/pluggableElementTypes/models/BaseViewModel.d.ts +2 -2
- package/esm/pluggableElementTypes/models/BaseViewModel.js +1 -1
- package/esm/ui/JexlFilterDialog.d.ts +1 -1
- package/esm/ui/JexlFilterDialog.js +2 -3
- package/esm/util/TimeTraveller.d.ts +3 -0
- package/esm/util/TimeTraveller.js +34 -2
- package/esm/util/baseDisplayConfig.d.ts +8 -0
- package/esm/util/baseDisplayConfig.js +27 -0
- package/esm/util/cachedSetup.d.ts +16 -6
- package/esm/util/cachedSetup.js +108 -38
- package/esm/util/cellMatches.d.ts +23 -0
- package/esm/util/cellMatches.js +264 -0
- package/esm/util/cellsStep.d.ts +29 -0
- package/esm/util/cellsStep.js +437 -0
- package/esm/util/copyToClipboard.js +8 -1
- package/esm/util/createAbortRotation.js +3 -3
- package/esm/util/featureTransforms.d.ts +7 -6
- package/esm/util/featureTransforms.js +131 -479
- package/esm/util/fetchPhases.d.ts +1 -1
- package/esm/util/formatBytes.js +1 -1
- package/esm/util/formatGuessers.d.ts +25 -14
- package/esm/util/formatGuessers.js +42 -27
- package/esm/util/formatRelativeTime.js +1 -1
- package/esm/util/getLocationUri.d.ts +2 -1
- package/esm/util/getLocationUri.js +8 -2
- package/esm/util/groupKeys.d.ts +4 -5
- package/esm/util/groupKeys.js +7 -6
- package/esm/util/intervals.js +9 -4
- package/esm/util/io/index.js +3 -1
- package/esm/util/jexlFilters.d.ts +31 -49
- package/esm/util/jexlFilters.js +29 -39
- package/esm/util/locString.js +5 -2
- package/esm/util/markEncoding.js +48 -8
- package/esm/util/markEncodingTypes.d.ts +8 -1
- package/esm/util/springAnimate.js +1 -1
- package/esm/util/stepTables.d.ts +14 -0
- package/esm/util/stepTables.js +38 -4
- package/esm/util/tabix.d.ts +6 -2
- package/esm/util/tabix.js +2 -2
- package/esm/util/tracks.d.ts +3 -30
- package/esm/util/tracks.js +4 -39
- package/esm/util/unknownSnapshotKeys.d.ts +3 -1
- package/esm/util/unknownSnapshotKeys.js +5 -11
- package/esm/util/usePanZoom.js +10 -3
- package/esm/util/useRafCommit.js +1 -0
- package/esm/util/withFeatureDetails.js +4 -0
- package/package.json +9 -8
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479
|
+
'@jbrowse/core/util/usePanZoom': m252,
|
|
480
|
+
'@jbrowse/core/util/usePointerDrag': m253,
|
|
481
|
+
'@jbrowse/core/util/useResizeDrag': m254,
|
|
482
|
+
'@jbrowse/core/util/useRowVirtualScroll': m255,
|
|
483
|
+
'@jbrowse/core/util/viewHighlights': m256,
|
|
484
|
+
'@jbrowse/core/util/viewStatus': m257,
|
|
485
|
+
'@jbrowse/core/util/virtualRange': m258,
|
|
486
|
+
'@jbrowse/core/util/wheelZoom': m259,
|
|
487
|
+
'@jbrowse/core/util/whenViewSettled': m260,
|
|
488
|
+
'@jbrowse/core/util/withLaunchInput': m261,
|
|
487
489
|
};
|
|
488
490
|
export default libs;
|
package/esm/ReExports/list.js
CHANGED
|
@@ -266,6 +266,7 @@ export default [
|
|
|
266
266
|
'@jbrowse/core/util/bandLayout',
|
|
267
267
|
'@jbrowse/core/util/Base1DUtils',
|
|
268
268
|
'@jbrowse/core/util/Base1DViewModel',
|
|
269
|
+
'@jbrowse/core/util/baseDisplayConfig',
|
|
269
270
|
'@jbrowse/core/util/bgzfWorkerPool',
|
|
270
271
|
'@jbrowse/core/util/blockTypes',
|
|
271
272
|
'@jbrowse/core/util/cacheBudgets',
|
|
@@ -391,8 +392,6 @@ export default [
|
|
|
391
392
|
'@jbrowse/core/util/withLaunchInput',
|
|
392
393
|
'@jbrowse/display-kit/BlockMsg',
|
|
393
394
|
'@jbrowse/display-kit/BottomRightIndicators',
|
|
394
|
-
'@jbrowse/display-kit/channelSpec',
|
|
395
|
-
'@jbrowse/display-kit/ChannelSpecDialog',
|
|
396
395
|
'@jbrowse/display-kit/ChromeHighlight',
|
|
397
396
|
'@jbrowse/display-kit/ChromeLegend',
|
|
398
397
|
'@jbrowse/display-kit/coarseTier',
|
|
@@ -446,6 +445,8 @@ export default [
|
|
|
446
445
|
'@jbrowse/display-kit/LegendMixin',
|
|
447
446
|
'@jbrowse/display-kit/MultiRegionDisplayMixin',
|
|
448
447
|
'@jbrowse/display-kit/planRegionFetch',
|
|
448
|
+
'@jbrowse/display-kit/PlotDialog',
|
|
449
|
+
'@jbrowse/display-kit/plotMenu',
|
|
449
450
|
'@jbrowse/display-kit/regionCommit',
|
|
450
451
|
'@jbrowse/display-kit/regionHost',
|
|
451
452
|
'@jbrowse/display-kit/regionTooLargeConfigSchemaFields',
|
|
@@ -30,3 +30,5 @@ export { toCallbackValue, toFixedValue } from './configurationSlot.ts';
|
|
|
30
30
|
export { getSlotDefinition, isConfigurationSlot, makeSlotFacade, slotChoices, slotValueRefusal, } from './slotFacade.ts';
|
|
31
31
|
export type { SlotFacade } from './slotFacade.ts';
|
|
32
32
|
export { fullConfSnapshot } from './fullConfSnapshot.ts';
|
|
33
|
+
export { PLOT_VOCABULARY, liftPlot, parsePlot, plotKeysOf, plotOf, plotWrites, } from './plot.ts';
|
|
34
|
+
export type { Plot, PlotExample } from './plot.ts';
|
|
@@ -25,3 +25,4 @@ export { evaluateJexl, isCallbackValue } from './slotValueUtils.js';
|
|
|
25
25
|
export { toCallbackValue, toFixedValue } from './configurationSlot.js';
|
|
26
26
|
export { getSlotDefinition, isConfigurationSlot, makeSlotFacade, slotChoices, slotValueRefusal, } from './slotFacade.js';
|
|
27
27
|
export { fullConfSnapshot } from './fullConfSnapshot.js';
|
|
28
|
+
export { PLOT_VOCABULARY, liftPlot, parsePlot, plotKeysOf, plotOf, plotWrites, } from './plot.js';
|
|
@@ -0,0 +1,61 @@
|
|
|
1
|
+
import type { AnyConfigurationModel } from './types.ts';
|
|
2
|
+
/**
|
|
3
|
+
* #api core/configuration
|
|
4
|
+
* The grammar's settings, by the slot name every display that has one gives
|
|
5
|
+
* it, and what each holds: what "Edit plot..." shows and an agent reads as a
|
|
6
|
+
* display's `plot`. A display's plot is the ones its config declares
|
|
7
|
+
* (`plotKeysOf`).
|
|
8
|
+
*/
|
|
9
|
+
export declare const PLOT_VOCABULARY: Readonly<Record<string, string>>;
|
|
10
|
+
/**
|
|
11
|
+
* #api core/configuration
|
|
12
|
+
* A display's plot settings as written: a key left out is left alone, and
|
|
13
|
+
* `null` resets that setting. Untyped, since a value may be a shorthand the
|
|
14
|
+
* schema lifts, and the schema is what judges it.
|
|
15
|
+
*/
|
|
16
|
+
export type Plot = Record<string, unknown>;
|
|
17
|
+
/**
|
|
18
|
+
* #api core/configuration
|
|
19
|
+
* A worked example of a display's plot: the text it fills the editor with,
|
|
20
|
+
* and what it does.
|
|
21
|
+
*/
|
|
22
|
+
export interface PlotExample {
|
|
23
|
+
plot: string;
|
|
24
|
+
description: string;
|
|
25
|
+
}
|
|
26
|
+
/**
|
|
27
|
+
* #api core/configuration
|
|
28
|
+
* The plot keys a display config declares.
|
|
29
|
+
*/
|
|
30
|
+
export declare function plotKeysOf(conf: AnyConfigurationModel): string[];
|
|
31
|
+
/**
|
|
32
|
+
* #api core/configuration
|
|
33
|
+
* A display's plot as declared, defaults left off. A list sitting at a
|
|
34
|
+
* default it shares with no other display, a default plot's marks, shows its
|
|
35
|
+
* entries, since they are what is drawn.
|
|
36
|
+
*/
|
|
37
|
+
export declare function plotOf(conf: AnyConfigurationModel): Plot;
|
|
38
|
+
/**
|
|
39
|
+
* #api core/configuration
|
|
40
|
+
* The text as a plot, refusing a key the display's plot does not hold. The
|
|
41
|
+
* schema is the parser past this point.
|
|
42
|
+
*/
|
|
43
|
+
export declare function parsePlot(text: string, keys: readonly string[]): Plot;
|
|
44
|
+
/**
|
|
45
|
+
* #api core/configuration
|
|
46
|
+
* A draft as the display's config would hold it, through the schema's own
|
|
47
|
+
* lift and checks: a shorthand becomes its object, a default falls off, and
|
|
48
|
+
* what a config file is refused for throws, a key outside the plot included.
|
|
49
|
+
* The node is never attached, so nothing on the display is touched; a display
|
|
50
|
+
* reads its typed members off it. The draft is copied first, since MST
|
|
51
|
+
* freezes what it creates from.
|
|
52
|
+
*/
|
|
53
|
+
export declare function liftPlot(conf: AnyConfigurationModel, draft: Plot): AnyConfigurationModel;
|
|
54
|
+
/**
|
|
55
|
+
* #api core/configuration
|
|
56
|
+
* What applying a draft writes: each setting whose lifted value differs from
|
|
57
|
+
* the plot, as the lifted value, and `null` for one it resets. A value
|
|
58
|
+
* spelled another way but lifting to the same setting writes nothing.
|
|
59
|
+
* Throws a refusal before anything is written.
|
|
60
|
+
*/
|
|
61
|
+
export declare function plotWrites(conf: AnyConfigurationModel, draft: Plot): Record<string, unknown>;
|