@jbrowse/core 1.5.1 → 1.5.2
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/BaseFeatureWidget/BaseFeatureDetail.js +2 -1
- package/BaseFeatureWidget/SequenceFeatureDetails.js +1 -1
- package/BaseFeatureWidget/index.js +1 -1
- package/BaseFeatureWidget/util.js +3 -3
- package/PluginLoader.d.ts +25 -2
- package/PluginLoader.js +335 -48
- package/PluginManager.d.ts +1 -0
- package/ReExports/list.js +1 -1
- package/ReExports/material-ui-colors.js +38 -38
- package/ReExports/modules.d.ts +2 -0
- package/ReExports/modules.js +3 -0
- package/TextSearch/BaseResults.js +1 -1
- package/assemblyManager/assembly.js +5 -3
- package/assemblyManager/index.js +4 -4
- package/configuration/configurationSchema.js +4 -2
- package/configuration/configurationSlot.js +3 -1
- package/configuration/index.js +4 -4
- package/configuration/util.js +2 -2
- package/data_adapters/BaseAdapter.d.ts +1 -1
- package/data_adapters/BaseAdapter.js +5 -5
- package/data_adapters/CytobandAdapter.js +4 -2
- package/data_adapters/dataAdapterCache.js +2 -2
- package/package.json +5 -4
- package/pluggableElementTypes/RpcMethodType.js +2 -2
- package/pluggableElementTypes/index.d.ts +2 -1
- package/pluggableElementTypes/index.js +37 -14
- package/pluggableElementTypes/models/BaseTrackModel.js +2 -1
- package/pluggableElementTypes/models/BaseViewModel.js +6 -2
- package/pluggableElementTypes/models/InternetAccountModel.d.ts +2 -2
- package/pluggableElementTypes/models/index.js +14 -14
- package/pluggableElementTypes/renderers/BoxRendererType.js +3 -3
- package/pluggableElementTypes/renderers/FeatureRendererType.d.ts +1 -1
- package/pluggableElementTypes/renderers/FeatureRendererType.js +1 -1
- package/pluggableElementTypes/renderers/RendererType.js +3 -1
- package/pluggableElementTypes/renderers/index.d.ts +2 -1
- package/rpc/BaseRpcDriver.js +1 -1
- package/rpc/BaseRpcDriver.test.js +3 -3
- package/rpc/MainThreadRpcDriver.js +2 -2
- package/rpc/RpcManager.d.ts +1 -1
- package/rpc/RpcManager.js +44 -16
- package/rpc/WebWorkerRpcDriver.js +5 -5
- package/rpc/coreRpcMethods.js +3 -3
- package/rpc/remoteAbortSignals.js +2 -2
- package/ui/App.js +2 -0
- package/ui/DrawerWidget.js +1 -0
- package/ui/Icons.js +4 -4
- package/ui/Logo.js +1 -1
- package/ui/PrerenderedCanvas.d.ts +1 -0
- package/ui/PrerenderedCanvas.js +4 -1
- package/ui/SanitizedHTML.js +1 -1
- package/ui/SnackbarModel.d.ts +16 -0
- package/ui/SnackbarModel.js +56 -0
- package/ui/ViewContainer.js +2 -1
- package/ui/index.js +24 -24
- package/ui/theme.js +5 -3
- package/util/aborting.js +4 -3
- package/util/blockTypes.js +1 -1
- package/util/color/cssColorsLevel4.js +1 -1
- package/util/color/index.js +5 -5
- package/util/index.d.ts +2 -1
- package/util/index.js +61 -32
- package/util/io/RemoteFileWithRangeCache.js +3 -3
- package/util/io/index.js +1 -1
- package/util/jexl.js +4 -1
- package/util/layouts/BaseLayout.d.ts +3 -0
- package/util/layouts/GranularRectLayout.d.ts +19 -10
- package/util/layouts/GranularRectLayout.js +459 -100
- package/util/layouts/GranularRectLayout.test.js +57 -10
- package/util/layouts/PrecomputedLayout.js +2 -1
- package/util/layouts/index.d.ts +7 -0
- package/util/layouts/index.js +68 -0
- package/util/mst-reflection.js +3 -3
- package/util/offscreenCanvasPonyfill.js +3 -3
- package/util/range.js +1 -1
- package/util/simpleFeature.js +1 -1
- package/util/stats.js +2 -2
- package/util/tracks.js +10 -10
- package/util/types/index.d.ts +7 -1
- package/util/types/index.js +10 -10
- package/util/types/mst.js +1 -1
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Object.defineProperty(exports, "BaseConnectionModelFactory", {
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Object.defineProperty(exports, "BaseInternetAccountConfig", {
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Object.defineProperty(exports, "createBaseTrackConfig", {
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exports.default = exports.LayoutSession = void 0;
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/**
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import { Feature, SimpleFeatureSerialized } from '../../util/simpleFeature';
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import { Region } from '../../util/types';
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import { AugmentedRegion as Region } from '../../util/types';
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import ServerSideRendererType, { RenderArgs as ServerSideRenderArgs, RenderArgsSerialized as ServerSideRenderArgsSerialized, RenderArgsDeserialized as ServerSideRenderArgsDeserialized, RenderResults as ServerSideRenderResults, ResultsDeserialized as ServerSideResultsDeserialized, ResultsSerialized as ServerSideResultsSerialized } from './ServerSideRendererType';
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import CircularChordRendererType from './CircularChordRendererType';
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import ComparativeServerSideRendererType from './ComparativeServerSideRendererType';
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import FeatureRendererType from './FeatureRendererType';
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import RendererType, { RenderProps } from './RendererType';
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export { BoxRendererType, CircularChordRendererType, ComparativeServerSideRendererType, FeatureRendererType, RendererType, ServerSideRenderedContent, ServerSideRendererType, };
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export type { RenderProps };
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package/rpc/BaseRpcDriver.js
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exports.serializeAbortSignal = serializeAbortSignal;
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package/ui/App.js
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package/ui/DrawerWidget.js
CHANGED
|
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package/ui/Icons.js
CHANGED
|
@@ -5,14 +5,14 @@ var _interopRequireDefault = require("@babel/runtime/helpers/interopRequireDefau
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|
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|
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|
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|
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exports.Cable = Cable;
|
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exports.ContentCopy = ContentCopy;
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exports.ContentCut = ContentCut;
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|
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exports.TrackSelector = TrackSelector;
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exports.SaveAs = SaveAs;
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exports.Save = Save;
|
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|
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|
|
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|
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exports.
|
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13
|
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exports.Save = Save;
|
|
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|
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exports.SaveAs = SaveAs;
|
|
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|
+
exports.TrackSelector = TrackSelector;
|
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|
var _SvgIcon = _interopRequireDefault(require("@material-ui/core/SvgIcon"));
|
|
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18
|
|
package/ui/Logo.js
CHANGED
|
@@ -5,8 +5,8 @@ var _interopRequireDefault = require("@babel/runtime/helpers/interopRequireDefau
|
|
|
5
5
|
Object.defineProperty(exports, "__esModule", {
|
|
6
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|
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|
|
7
7
|
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|
|
8
|
-
exports.Logomark = Logomark;
|
|
9
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|
exports.LogoFull = LogoFull;
|
|
9
|
+
exports.Logomark = Logomark;
|
|
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|
|
|
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|
var _react = _interopRequireDefault(require("react"));
|
|
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|
|
package/ui/PrerenderedCanvas.js
CHANGED
|
@@ -33,6 +33,7 @@ function PrerenderedCanvas(props) {
|
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|
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|
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|
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|
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|
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|
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var featureCanvas = (0, _react.useRef)(null);
|
|
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(0, _react.useEffect)(function () {
|
|
@@ -78,8 +79,10 @@ function PrerenderedCanvas(props) {
|
|
|
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|
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|
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|
}, [imageData]);
|
|
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|
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|
|
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|
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var blockKeyStr = blockKey ? '_' + blockKey : '';
|
|
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|
+
var testId = "prerendered_canvas".concat(softClipString).concat(blockKeyStr);
|
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|
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|
|
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|
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|
|
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|
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|
|
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|
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|
package/ui/SanitizedHTML.js
CHANGED
|
@@ -5,8 +5,8 @@ var _interopRequireDefault = require("@babel/runtime/helpers/interopRequireDefau
|
|
|
5
5
|
Object.defineProperty(exports, "__esModule", {
|
|
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|
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|
|
7
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|
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|
|
8
|
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exports.isHTML = isHTML;
|
|
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8
|
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|
|
9
|
+
exports.isHTML = isHTML;
|
|
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|
11
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|
var _react = _interopRequireDefault(require("react"));
|
|
12
12
|
|
|
@@ -0,0 +1,16 @@
|
|
|
1
|
+
import { IModelType, ModelProperties } from 'mobx-state-tree';
|
|
2
|
+
import { IObservableArray } from 'mobx';
|
|
3
|
+
import { NotificationLevel } from '../util/types';
|
|
4
|
+
declare function makeExtension(snackbarMessages: IObservableArray<any>): {
|
|
5
|
+
views: {
|
|
6
|
+
readonly snackbarMessages: IObservableArray<any>;
|
|
7
|
+
};
|
|
8
|
+
actions: {
|
|
9
|
+
notify(message: string, level?: NotificationLevel | undefined): void;
|
|
10
|
+
pushSnackbarMessage(message: string, level?: NotificationLevel | undefined): number;
|
|
11
|
+
popSnackbarMessage(): any;
|
|
12
|
+
removeSnackbarMessage(message: string): void;
|
|
13
|
+
};
|
|
14
|
+
};
|
|
15
|
+
export default function addSnackbarToModel<PROPS extends ModelProperties, OTHERS>(tree: IModelType<PROPS, OTHERS>): IModelType<PROPS, OTHERS & ReturnType<typeof makeExtension>['actions'] & ReturnType<typeof makeExtension>['views']>;
|
|
16
|
+
export {};
|
|
@@ -0,0 +1,56 @@
|
|
|
1
|
+
"use strict";
|
|
2
|
+
|
|
3
|
+
Object.defineProperty(exports, "__esModule", {
|
|
4
|
+
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|
|
5
|
+
});
|
|
6
|
+
exports.default = addSnackbarToModel;
|
|
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|
+
|
|
8
|
+
var _mobx = require("mobx");
|
|
9
|
+
|
|
10
|
+
// eslint-disable-next-line @typescript-eslint/no-explicit-any
|
|
11
|
+
function makeExtension(snackbarMessages) {
|
|
12
|
+
return {
|
|
13
|
+
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|
|
14
|
+
get snackbarMessages() {
|
|
15
|
+
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|
|
16
|
+
}
|
|
17
|
+
|
|
18
|
+
},
|
|
19
|
+
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|
|
20
|
+
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|
|
21
|
+
var _this = this;
|
|
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|
+
|
|
23
|
+
this.pushSnackbarMessage(message, level);
|
|
24
|
+
|
|
25
|
+
if (level === 'info' || level === 'success') {
|
|
26
|
+
setTimeout(function () {
|
|
27
|
+
_this.removeSnackbarMessage(message);
|
|
28
|
+
}, 5000);
|
|
29
|
+
}
|
|
30
|
+
},
|
|
31
|
+
pushSnackbarMessage: function pushSnackbarMessage(message, level) {
|
|
32
|
+
return snackbarMessages.push([message, level]);
|
|
33
|
+
},
|
|
34
|
+
popSnackbarMessage: function popSnackbarMessage() {
|
|
35
|
+
return snackbarMessages.pop();
|
|
36
|
+
},
|
|
37
|
+
removeSnackbarMessage: function removeSnackbarMessage(message) {
|
|
38
|
+
var element = snackbarMessages.find(function (f) {
|
|
39
|
+
return f[0] === message;
|
|
40
|
+
});
|
|
41
|
+
|
|
42
|
+
if (element) {
|
|
43
|
+
snackbarMessages.remove(element);
|
|
44
|
+
}
|
|
45
|
+
}
|
|
46
|
+
}
|
|
47
|
+
};
|
|
48
|
+
}
|
|
49
|
+
|
|
50
|
+
function addSnackbarToModel(tree) {
|
|
51
|
+
return tree.extend(function () {
|
|
52
|
+
var snackbarMessages = _mobx.observable.array();
|
|
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|
+
|
|
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|
+
return makeExtension(snackbarMessages);
|
|
55
|
+
});
|
|
56
|
+
}
|
package/ui/ViewContainer.js
CHANGED
|
@@ -183,7 +183,8 @@ var _default = (0, _reactMeasure.withContentRect)('bounds')((0, _mobxReact.obser
|
|
|
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|
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|
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|
}, /*#__PURE__*/_react.default.createElement(_EditableTypography.default, {
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|
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|
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|
|
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|
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|
|
187
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|
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|
|
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189
|
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|
|
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|
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|
package/ui/index.js
CHANGED
|
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|
|
|
21
21
|
Menu: true,
|
|
22
22
|
SanitizedHTML: true
|
|
23
23
|
};
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|
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|
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Object.defineProperty(exports, "
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|
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Object.defineProperty(exports, "App", {
|
|
25
25
|
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|
|
26
26
|
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|
|
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|
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|
|
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|
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|
|
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28
|
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|
|
29
29
|
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|
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|
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Object.defineProperty(exports, "
|
|
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|
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Object.defineProperty(exports, "EditableTypography", {
|
|
31
31
|
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|
|
32
32
|
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|
|
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|
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|
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|
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|
|
34
34
|
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|
|
35
35
|
});
|
|
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|
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Object.defineProperty(exports, "
|
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|
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Object.defineProperty(exports, "FactoryResetDialog", {
|
|
37
37
|
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|
|
38
38
|
get: function get() {
|
|
39
|
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return
|
|
39
|
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return _FactoryResetDialog.default;
|
|
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40
|
}
|
|
41
41
|
});
|
|
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|
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Object.defineProperty(exports, "
|
|
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|
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Object.defineProperty(exports, "FatalErrorDialog", {
|
|
43
43
|
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|
|
44
44
|
get: function get() {
|
|
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|
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return
|
|
45
|
+
return _FatalErrorDialog.default;
|
|
46
46
|
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|
|
47
47
|
});
|
|
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|
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Object.defineProperty(exports, "
|
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|
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Object.defineProperty(exports, "FileSelector", {
|
|
49
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|
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|
|
50
50
|
get: function get() {
|
|
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|
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return
|
|
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|
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return _FileSelector.default;
|
|
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52
|
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|
|
53
53
|
});
|
|
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|
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Object.defineProperty(exports, "
|
|
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|
+
Object.defineProperty(exports, "LogoFull", {
|
|
55
55
|
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|
|
56
56
|
get: function get() {
|
|
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|
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return
|
|
57
|
+
return _Logo.LogoFull;
|
|
58
58
|
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|
|
59
59
|
});
|
|
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|
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Object.defineProperty(exports, "
|
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|
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Object.defineProperty(exports, "Logomark", {
|
|
61
61
|
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|
|
62
62
|
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|
|
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|
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return
|
|
63
|
+
return _Logo.Logomark;
|
|
64
64
|
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|
|
65
65
|
});
|
|
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|
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Object.defineProperty(exports, "
|
|
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|
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Object.defineProperty(exports, "Menu", {
|
|
67
67
|
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|
|
68
68
|
get: function get() {
|
|
69
|
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return
|
|
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|
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return _Menu.default;
|
|
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70
|
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|
|
71
71
|
});
|
|
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|
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Object.defineProperty(exports, "
|
|
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|
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Object.defineProperty(exports, "PrerenderedCanvas", {
|
|
73
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|
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|
|
74
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|
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|
|
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|
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return
|
|
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|
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|
|
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|
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|
|
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|
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Object.defineProperty(exports, "
|
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|
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Object.defineProperty(exports, "ResizeHandle", {
|
|
79
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|
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|
|
80
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|
get: function get() {
|
|
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|
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return
|
|
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|
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return _ResizeHandle.default;
|
|
82
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|
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|
|
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|
});
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Object.defineProperty(exports, "
|
|
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|
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Object.defineProperty(exports, "SanitizedHTML", {
|
|
85
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|
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|
|
86
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|
get: function get() {
|
|
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|
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return
|
|
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|
+
return _SanitizedHTML.default;
|
|
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|
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|
|
89
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|
});
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|
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Object.defineProperty(exports, "
|
|
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|
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Object.defineProperty(exports, "Tooltip", {
|
|
91
91
|
enumerable: true,
|
|
92
92
|
get: function get() {
|
|
93
|
-
return
|
|
93
|
+
return _Tooltip.default;
|
|
94
94
|
}
|
|
95
95
|
});
|
|
96
96
|
|
package/ui/theme.js
CHANGED
|
@@ -5,10 +5,10 @@ var _interopRequireDefault = require("@babel/runtime/helpers/interopRequireDefau
|
|
|
5
5
|
Object.defineProperty(exports, "__esModule", {
|
|
6
6
|
value: true
|
|
7
7
|
});
|
|
8
|
-
exports.createJBrowseDefaultProps = createJBrowseDefaultProps;
|
|
9
8
|
exports.createJBrowseDefaultOverrides = createJBrowseDefaultOverrides;
|
|
9
|
+
exports.createJBrowseDefaultProps = createJBrowseDefaultProps;
|
|
10
10
|
exports.createJBrowseTheme = createJBrowseTheme;
|
|
11
|
-
exports.
|
|
11
|
+
exports.jbrowseDefaultPalette = exports.jbrowseBaseTheme = void 0;
|
|
12
12
|
|
|
13
13
|
var _defineProperty2 = _interopRequireDefault(require("@babel/runtime/helpers/defineProperty"));
|
|
14
14
|
|
|
@@ -54,7 +54,9 @@ var jbrowseDefaultPalette = {
|
|
|
54
54
|
};
|
|
55
55
|
exports.jbrowseDefaultPalette = jbrowseDefaultPalette;
|
|
56
56
|
|
|
57
|
-
function
|
|
57
|
+
function
|
|
58
|
+
/* palette: PaletteOptions = {} */
|
|
59
|
+
createJBrowseDefaultProps() {
|
|
58
60
|
return {
|
|
59
61
|
MuiButton: {
|
|
60
62
|
size: 'small'
|