@jbrowse/plugin-wiggle 2.10.3 → 2.11.1
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.
- package/dist/BigWigAdapter/index.d.ts +1 -2
- package/dist/BigWigAdapter/index.js +3 -2
- package/dist/CreateMultiWiggleExtension/index.d.ts +1 -1
- package/dist/CreateMultiWiggleExtension/index.js +2 -2
- package/dist/DensityRenderer/index.d.ts +1 -2
- package/dist/DensityRenderer/index.js +3 -2
- package/dist/LinePlotRenderer/index.d.ts +1 -2
- package/dist/LinePlotRenderer/index.js +3 -2
- package/dist/LinearWiggleDisplay/components/SetColorDialog.d.ts +3 -3
- package/dist/LinearWiggleDisplay/components/Tooltip.d.ts +0 -4
- package/dist/LinearWiggleDisplay/index.d.ts +1 -2
- package/dist/LinearWiggleDisplay/index.js +3 -2
- package/dist/MultiDensityRenderer/index.d.ts +1 -2
- package/dist/MultiDensityRenderer/index.js +3 -2
- package/dist/MultiLineRenderer/index.d.ts +1 -2
- package/dist/MultiLineRenderer/index.js +3 -2
- package/dist/MultiLinearWiggleDisplay/components/ColorLegend.d.ts +1 -1
- package/dist/MultiLinearWiggleDisplay/components/RectBg.js +2 -1
- package/dist/MultiLinearWiggleDisplay/components/Tooltip.d.ts +0 -7
- package/dist/MultiLinearWiggleDisplay/components/YScaleBars.js +9 -14
- package/dist/MultiLinearWiggleDisplay/index.d.ts +1 -2
- package/dist/MultiLinearWiggleDisplay/index.js +3 -2
- package/dist/MultiQuantitativeTrack/index.d.ts +1 -2
- package/dist/MultiQuantitativeTrack/index.js +3 -2
- package/dist/MultiRowLineRenderer/index.d.ts +1 -2
- package/dist/MultiRowLineRenderer/index.js +3 -2
- package/dist/MultiRowXYPlotRenderer/index.d.ts +1 -2
- package/dist/MultiRowXYPlotRenderer/index.js +3 -2
- package/dist/MultiWiggleAdapter/index.d.ts +1 -2
- package/dist/MultiWiggleAdapter/index.js +3 -2
- package/dist/MultiWiggleAddTrackWorkflow/index.d.ts +2 -0
- package/dist/{MultiWiggleAddTrackWidget → MultiWiggleAddTrackWorkflow}/index.js +3 -2
- package/dist/MultiXYPlotRenderer/index.d.ts +1 -2
- package/dist/MultiXYPlotRenderer/index.js +3 -2
- package/dist/QuantitativeTrack/index.d.ts +1 -2
- package/dist/QuantitativeTrack/index.js +3 -2
- package/dist/Tooltip.d.ts +2 -2
- package/dist/Tooltip.js +1 -0
- package/dist/XYPlotRenderer/index.d.ts +1 -2
- package/dist/XYPlotRenderer/index.js +3 -2
- package/dist/index.js +2 -2
- package/dist/shared/YScaleBar.d.ts +1 -1
- package/esm/BigWigAdapter/index.d.ts +1 -2
- package/esm/BigWigAdapter/index.js +2 -2
- package/esm/CreateMultiWiggleExtension/index.d.ts +1 -1
- package/esm/CreateMultiWiggleExtension/index.js +1 -1
- package/esm/DensityRenderer/index.d.ts +1 -2
- package/esm/DensityRenderer/index.js +2 -2
- package/esm/LinePlotRenderer/index.d.ts +1 -2
- package/esm/LinePlotRenderer/index.js +2 -2
- package/esm/LinearWiggleDisplay/components/SetColorDialog.d.ts +3 -3
- package/esm/LinearWiggleDisplay/components/Tooltip.d.ts +0 -4
- package/esm/LinearWiggleDisplay/index.d.ts +1 -2
- package/esm/LinearWiggleDisplay/index.js +2 -2
- package/esm/MultiDensityRenderer/index.d.ts +1 -2
- package/esm/MultiDensityRenderer/index.js +2 -2
- package/esm/MultiLineRenderer/index.d.ts +1 -2
- package/esm/MultiLineRenderer/index.js +2 -2
- package/esm/MultiLinearWiggleDisplay/components/ColorLegend.d.ts +1 -1
- package/esm/MultiLinearWiggleDisplay/components/RectBg.js +2 -1
- package/esm/MultiLinearWiggleDisplay/components/Tooltip.d.ts +0 -7
- package/esm/MultiLinearWiggleDisplay/components/YScaleBars.js +9 -14
- package/esm/MultiLinearWiggleDisplay/index.d.ts +1 -2
- package/esm/MultiLinearWiggleDisplay/index.js +2 -2
- package/esm/MultiQuantitativeTrack/index.d.ts +1 -2
- package/esm/MultiQuantitativeTrack/index.js +2 -2
- package/esm/MultiRowLineRenderer/index.d.ts +1 -2
- package/esm/MultiRowLineRenderer/index.js +2 -2
- package/esm/MultiRowXYPlotRenderer/index.d.ts +1 -2
- package/esm/MultiRowXYPlotRenderer/index.js +2 -2
- package/esm/MultiWiggleAdapter/index.d.ts +1 -2
- package/esm/MultiWiggleAdapter/index.js +2 -2
- package/esm/MultiWiggleAddTrackWorkflow/index.d.ts +2 -0
- package/esm/{MultiWiggleAddTrackWidget → MultiWiggleAddTrackWorkflow}/index.js +2 -2
- package/esm/MultiXYPlotRenderer/index.d.ts +1 -2
- package/esm/MultiXYPlotRenderer/index.js +2 -2
- package/esm/QuantitativeTrack/index.d.ts +1 -2
- package/esm/QuantitativeTrack/index.js +2 -2
- package/esm/Tooltip.d.ts +2 -2
- package/esm/Tooltip.js +1 -0
- package/esm/XYPlotRenderer/index.d.ts +1 -2
- package/esm/XYPlotRenderer/index.js +2 -2
- package/esm/index.js +2 -2
- package/esm/shared/YScaleBar.d.ts +1 -1
- package/package.json +3 -3
- package/dist/MultiWiggleAddTrackWidget/index.d.ts +0 -3
- package/esm/MultiWiggleAddTrackWidget/index.d.ts +0 -3
- /package/dist/{MultiWiggleAddTrackWidget → MultiWiggleAddTrackWorkflow}/AddTrackWorkflow.d.ts +0 -0
- /package/dist/{MultiWiggleAddTrackWidget → MultiWiggleAddTrackWorkflow}/AddTrackWorkflow.js +0 -0
- /package/esm/{MultiWiggleAddTrackWidget → MultiWiggleAddTrackWorkflow}/AddTrackWorkflow.d.ts +0 -0
- /package/esm/{MultiWiggleAddTrackWidget → MultiWiggleAddTrackWorkflow}/AddTrackWorkflow.js +0 -0
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@@ -28,7 +28,7 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
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Object.defineProperty(exports, "__esModule", { value: true });
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const AdapterType_1 = __importDefault(require("@jbrowse/core/pluggableElementTypes/AdapterType"));
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const configSchema_1 = __importDefault(require("./configSchema"));
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function BigWigAdapterF(pluginManager) {
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pluginManager.addAdapterType(() => new AdapterType_1.default({
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name: 'BigWigAdapter',
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displayName: 'BigWig adapter',
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@@ -40,4 +40,5 @@ exports.default = (pluginManager) => {
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],
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getAdapterClass: () => Promise.resolve().then(() => __importStar(require('./BigWigAdapter'))).then(r => r.default),
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}));
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}
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}
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exports.default = BigWigAdapterF;
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import PluginManager from '@jbrowse/core/PluginManager';
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export default function (pm: PluginManager): void;
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export default function CreateMultiWiggleExtensionF(pm: PluginManager): void;
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const configuration_1 = require("@jbrowse/core/configuration");
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const util_1 = require("@jbrowse/core/util");
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const ConfirmDialog = (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('./ConfirmDialog'))));
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function
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function CreateMultiWiggleExtensionF(pm) {
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pm.addToExtensionPoint('TrackSelector-multiTrackMenuItems', (items, props) => {
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const { session } = props;
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return [
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];
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});
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}
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exports.default =
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exports.default = CreateMultiWiggleExtensionF;
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const configSchema_1 = __importDefault(require("./configSchema"));
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const DensityRenderer_1 = __importDefault(require("./DensityRenderer"));
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const WiggleRendering_1 = __importDefault(require("../WiggleRendering"));
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function DensityRendererF(pluginManager) {
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pluginManager.addRendererType(() => new DensityRenderer_1.default({
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name: 'DensityRenderer',
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ReactComponent: WiggleRendering_1.default,
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configSchema: configSchema_1.default,
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pluginManager,
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}));
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}
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}
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exports.default = DensityRendererF;
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const configSchema_1 = __importDefault(require("./configSchema"));
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const WiggleRendering_1 = __importDefault(require("../WiggleRendering"));
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const LinePlotRenderer_1 = __importDefault(require("./LinePlotRenderer"));
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function LinePlotRendererF(pluginManager) {
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pluginManager.addRendererType(() => new LinePlotRenderer_1.default({
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name: 'LinePlotRenderer',
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ReactComponent: WiggleRendering_1.default,
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configSchema: configSchema_1.default,
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pluginManager,
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}));
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}
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}
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exports.default = LinePlotRendererF;
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import React from 'react';
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declare const SetColorDialog: ({ model, handleClose, }: {
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model: {
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color?: string
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posColor?: string
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negColor?: string
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color?: string;
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posColor?: string;
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negColor?: string;
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setColor: (arg?: string) => void;
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setPosColor: (arg?: string) => void;
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setNegColor: (arg?: string) => void;
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import React from 'react';
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import { Feature } from '@jbrowse/core/util';
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import { TooltipContentsComponent } from '../../Tooltip';
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interface Props {
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feature: Feature;
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}
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declare const TooltipContents: React.ForwardRefExoticComponent<Props & React.RefAttributes<HTMLDivElement>>;
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type Coord = [number, number];
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declare const WiggleTooltip: (props: {
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model: {
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import PluginManager from '@jbrowse/core/PluginManager';
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export default _default;
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export default function LinearWiggleDisplayF(pluginManager: PluginManager): void;
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export { default as Tooltip } from './components/Tooltip';
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export { default as ReactComponent } from './components/WiggleDisplayComponent';
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export { default as modelFactory } from './models/model';
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const configSchema_1 = __importDefault(require("./models/configSchema"));
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const model_1 = __importDefault(require("./models/model"));
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const react_1 = require("react");
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function LinearWiggleDisplayF(pluginManager) {
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pluginManager.addDisplayType(() => {
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const configSchema = (0, configSchema_1.default)(pluginManager);
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const stateModel = (0, model_1.default)(pluginManager, configSchema);
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ReactComponent: (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('./components/WiggleDisplayComponent')))),
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});
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});
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}
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}
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exports.default = LinearWiggleDisplayF;
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var Tooltip_1 = require("./components/Tooltip");
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Object.defineProperty(exports, "Tooltip", { enumerable: true, get: function () { return __importDefault(Tooltip_1).default; } });
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var WiggleDisplayComponent_1 = require("./components/WiggleDisplayComponent");
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const MultiWiggleRendering_1 = __importDefault(require("../MultiWiggleRendering"));
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const MultiDensityRenderer_1 = __importDefault(require("./MultiDensityRenderer"));
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function MultiDensityRendererF(pluginManager) {
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name: 'MultiDensityRenderer',
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exports.default = MultiDensityRendererF;
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function MultiLineRendererF(pluginManager) {
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name: 'MultiLineRenderer',
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const RectBg = (props) => {
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const { color = 'rgb(255,255,255,0.8)' } = props;
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return react_1.default.createElement("rect", { ...props, ...(0, util_1.getFillProps)(color) });
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function MultiLinearWiggleDisplayF(pluginManager) {
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function MultiQuantitativeTrackF(pluginManager) {
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10
|
pluginManager.addTrackType(() => {
|
|
11
11
|
const configSchema = (0, configSchema_1.default)(pluginManager);
|
|
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12
|
return new TrackType_1.default({
|
|
@@ -16,4 +16,5 @@ exports.default = (pluginManager) => {
|
|
|
16
16
|
stateModel: (0, models_1.createBaseTrackModel)(pluginManager, 'MultiQuantitativeTrack', configSchema),
|
|
17
17
|
});
|
|
18
18
|
});
|
|
19
|
-
}
|
|
19
|
+
}
|
|
20
|
+
exports.default = MultiQuantitativeTrackF;
|
|
@@ -6,11 +6,12 @@ Object.defineProperty(exports, "__esModule", { value: true });
|
|
|
6
6
|
const MultiWiggleRendering_1 = __importDefault(require("../MultiWiggleRendering"));
|
|
7
7
|
const MultiRowLineRenderer_1 = __importDefault(require("./MultiRowLineRenderer"));
|
|
8
8
|
const configSchema_1 = __importDefault(require("./configSchema"));
|
|
9
|
-
|
|
9
|
+
function MultiRowLineRendererF(pluginManager) {
|
|
10
10
|
pluginManager.addRendererType(() => new MultiRowLineRenderer_1.default({
|
|
11
11
|
name: 'MultiRowLineRenderer',
|
|
12
12
|
ReactComponent: MultiWiggleRendering_1.default,
|
|
13
13
|
configSchema: configSchema_1.default,
|
|
14
14
|
pluginManager,
|
|
15
15
|
}));
|
|
16
|
-
}
|
|
16
|
+
}
|
|
17
|
+
exports.default = MultiRowLineRendererF;
|
|
@@ -6,11 +6,12 @@ Object.defineProperty(exports, "__esModule", { value: true });
|
|
|
6
6
|
const MultiWiggleRendering_1 = __importDefault(require("../MultiWiggleRendering"));
|
|
7
7
|
const MultiRowXYPlotRenderer_1 = __importDefault(require("./MultiRowXYPlotRenderer"));
|
|
8
8
|
const configSchema_1 = __importDefault(require("./configSchema"));
|
|
9
|
-
|
|
9
|
+
function MultiRowXYPlotRendererF(pluginManager) {
|
|
10
10
|
pluginManager.addRendererType(() => new MultiRowXYPlotRenderer_1.default({
|
|
11
11
|
name: 'MultiRowXYPlotRenderer',
|
|
12
12
|
ReactComponent: MultiWiggleRendering_1.default,
|
|
13
13
|
configSchema: configSchema_1.default,
|
|
14
14
|
pluginManager,
|
|
15
15
|
}));
|
|
16
|
-
}
|
|
16
|
+
}
|
|
17
|
+
exports.default = MultiRowXYPlotRendererF;
|
|
@@ -28,7 +28,7 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
|
|
|
28
28
|
Object.defineProperty(exports, "__esModule", { value: true });
|
|
29
29
|
const configSchema_1 = __importDefault(require("./configSchema"));
|
|
30
30
|
const AdapterType_1 = __importDefault(require("@jbrowse/core/pluggableElementTypes/AdapterType"));
|
|
31
|
-
|
|
31
|
+
function MultiWiggleAdapterF(pluginManager) {
|
|
32
32
|
pluginManager.addAdapterType(() => new AdapterType_1.default({
|
|
33
33
|
name: 'MultiWiggleAdapter',
|
|
34
34
|
displayName: 'Multi-wiggle adapter',
|
|
@@ -43,4 +43,5 @@ exports.default = (pluginManager) => {
|
|
|
43
43
|
},
|
|
44
44
|
getAdapterClass: () => Promise.resolve().then(() => __importStar(require('./MultiWiggleAdapter'))).then(r => r.default),
|
|
45
45
|
}));
|
|
46
|
-
}
|
|
46
|
+
}
|
|
47
|
+
exports.default = MultiWiggleAdapterF;
|
|
@@ -27,10 +27,11 @@ const pluggableElementTypes_1 = require("@jbrowse/core/pluggableElementTypes");
|
|
|
27
27
|
const mobx_state_tree_1 = require("mobx-state-tree");
|
|
28
28
|
// locals
|
|
29
29
|
const react_1 = require("react");
|
|
30
|
-
|
|
30
|
+
function MultiWiggleAddTrackWorkflowF(pm) {
|
|
31
31
|
pm.addAddTrackWorkflowType(() => new pluggableElementTypes_1.AddTrackWorkflowType({
|
|
32
32
|
name: 'Multi-wiggle track',
|
|
33
33
|
ReactComponent: (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('./AddTrackWorkflow')))),
|
|
34
34
|
stateModel: mobx_state_tree_1.types.model({}),
|
|
35
35
|
}));
|
|
36
|
-
}
|
|
36
|
+
}
|
|
37
|
+
exports.default = MultiWiggleAddTrackWorkflowF;
|
|
@@ -6,11 +6,12 @@ Object.defineProperty(exports, "__esModule", { value: true });
|
|
|
6
6
|
const MultiWiggleRendering_1 = __importDefault(require("../MultiWiggleRendering"));
|
|
7
7
|
const MultiXYPlotRenderer_1 = __importDefault(require("./MultiXYPlotRenderer"));
|
|
8
8
|
const configSchema_1 = __importDefault(require("./configSchema"));
|
|
9
|
-
|
|
9
|
+
function MultiXYPlotRendererF(pluginManager) {
|
|
10
10
|
pluginManager.addRendererType(() => new MultiXYPlotRenderer_1.default({
|
|
11
11
|
name: 'MultiXYPlotRenderer',
|
|
12
12
|
ReactComponent: MultiWiggleRendering_1.default,
|
|
13
13
|
configSchema: configSchema_1.default,
|
|
14
14
|
pluginManager,
|
|
15
15
|
}));
|
|
16
|
-
}
|
|
16
|
+
}
|
|
17
|
+
exports.default = MultiXYPlotRendererF;
|
|
@@ -6,7 +6,7 @@ Object.defineProperty(exports, "__esModule", { value: true });
|
|
|
6
6
|
const models_1 = require("@jbrowse/core/pluggableElementTypes/models");
|
|
7
7
|
const TrackType_1 = __importDefault(require("@jbrowse/core/pluggableElementTypes/TrackType"));
|
|
8
8
|
const configSchema_1 = __importDefault(require("./configSchema"));
|
|
9
|
-
|
|
9
|
+
function QuantitativeTrackF(pluginManager) {
|
|
10
10
|
pluginManager.addTrackType(() => {
|
|
11
11
|
const configSchema = (0, configSchema_1.default)(pluginManager);
|
|
12
12
|
return new TrackType_1.default({
|
|
@@ -16,4 +16,5 @@ exports.default = (pluginManager) => {
|
|
|
16
16
|
stateModel: (0, models_1.createBaseTrackModel)(pluginManager, 'QuantitativeTrack', configSchema),
|
|
17
17
|
});
|
|
18
18
|
});
|
|
19
|
-
}
|
|
19
|
+
}
|
|
20
|
+
exports.default = QuantitativeTrackF;
|
package/dist/Tooltip.d.ts
CHANGED
|
@@ -9,11 +9,11 @@ declare const Tooltip: ({ model, height, clientMouseCoord, offsetMouseCoord, cli
|
|
|
9
9
|
model: {
|
|
10
10
|
featureUnderMouse: Feature;
|
|
11
11
|
};
|
|
12
|
-
useClientY?: boolean
|
|
12
|
+
useClientY?: boolean;
|
|
13
13
|
height: number;
|
|
14
14
|
clientMouseCoord: Coord;
|
|
15
15
|
offsetMouseCoord: Coord;
|
|
16
|
-
clientRect?: DOMRect
|
|
16
|
+
clientRect?: DOMRect;
|
|
17
17
|
TooltipContents: TooltipContentsComponent;
|
|
18
18
|
}) => React.JSX.Element | null;
|
|
19
19
|
export default Tooltip;
|
package/dist/Tooltip.js
CHANGED
|
@@ -44,6 +44,7 @@ const Tooltip = (0, mobx_react_1.observer)(function Tooltip({ model, height, cli
|
|
|
44
44
|
const { classes } = useStyles();
|
|
45
45
|
const { refs, floatingStyles, context } = (0, react_2.useFloating)({
|
|
46
46
|
placement: 'right',
|
|
47
|
+
strategy: 'fixed',
|
|
47
48
|
});
|
|
48
49
|
const x = clientMouseCoord[0] + 5;
|
|
49
50
|
const y = useClientY ? clientMouseCoord[1] : (clientRect === null || clientRect === void 0 ? void 0 : clientRect.top) || 0;
|
|
@@ -1,6 +1,5 @@
|
|
|
1
1
|
import PluginManager from '@jbrowse/core/PluginManager';
|
|
2
|
-
|
|
3
|
-
export default _default;
|
|
2
|
+
export default function XYPlotRendererF(pluginManager: PluginManager): void;
|
|
4
3
|
export { default as XYPlotRenderer } from './XYPlotRenderer';
|
|
5
4
|
export { default as ReactComponent } from '../WiggleRendering';
|
|
6
5
|
export { default as configSchema } from './configSchema';
|
|
@@ -7,14 +7,15 @@ exports.configSchema = exports.ReactComponent = exports.XYPlotRenderer = void 0;
|
|
|
7
7
|
const WiggleRendering_1 = __importDefault(require("../WiggleRendering"));
|
|
8
8
|
const XYPlotRenderer_1 = __importDefault(require("./XYPlotRenderer"));
|
|
9
9
|
const configSchema_1 = __importDefault(require("./configSchema"));
|
|
10
|
-
|
|
10
|
+
function XYPlotRendererF(pluginManager) {
|
|
11
11
|
pluginManager.addRendererType(() => new XYPlotRenderer_1.default({
|
|
12
12
|
name: 'XYPlotRenderer',
|
|
13
13
|
ReactComponent: WiggleRendering_1.default,
|
|
14
14
|
configSchema: configSchema_1.default,
|
|
15
15
|
pluginManager,
|
|
16
16
|
}));
|
|
17
|
-
}
|
|
17
|
+
}
|
|
18
|
+
exports.default = XYPlotRendererF;
|
|
18
19
|
var XYPlotRenderer_2 = require("./XYPlotRenderer");
|
|
19
20
|
Object.defineProperty(exports, "XYPlotRenderer", { enumerable: true, get: function () { return __importDefault(XYPlotRenderer_2).default; } });
|
|
20
21
|
var WiggleRendering_2 = require("../WiggleRendering");
|
package/dist/index.js
CHANGED
|
@@ -49,7 +49,7 @@ const MultiDensityRenderer_1 = __importDefault(require("./MultiDensityRenderer")
|
|
|
49
49
|
const MultiLineRenderer_1 = __importDefault(require("./MultiLineRenderer"));
|
|
50
50
|
const MultiRowLineRenderer_1 = __importDefault(require("./MultiRowLineRenderer"));
|
|
51
51
|
const CreateMultiWiggleExtension_1 = __importDefault(require("./CreateMultiWiggleExtension"));
|
|
52
|
-
const
|
|
52
|
+
const MultiWiggleAddTrackWorkflow_1 = __importDefault(require("./MultiWiggleAddTrackWorkflow"));
|
|
53
53
|
const utils = __importStar(require("./util"));
|
|
54
54
|
const rpcMethods_1 = require("./WiggleRPC/rpcMethods");
|
|
55
55
|
const LinearWiggleDisplay_2 = require("./LinearWiggleDisplay");
|
|
@@ -83,7 +83,7 @@ class WigglePlugin extends Plugin_1.default {
|
|
|
83
83
|
(0, MultiDensityRenderer_1.default)(pm);
|
|
84
84
|
(0, MultiLineRenderer_1.default)(pm);
|
|
85
85
|
(0, MultiRowLineRenderer_1.default)(pm);
|
|
86
|
-
(0,
|
|
86
|
+
(0, MultiWiggleAddTrackWorkflow_1.default)(pm);
|
|
87
87
|
(0, CreateMultiWiggleExtension_1.default)(pm);
|
|
88
88
|
pm.addToExtensionPoint('Core-guessAdapterForLocation', (cb) => {
|
|
89
89
|
return (file, index, hint) => {
|
|
@@ -1,6 +1,6 @@
|
|
|
1
1
|
import AdapterType from '@jbrowse/core/pluggableElementTypes/AdapterType';
|
|
2
2
|
import configSchema from './configSchema';
|
|
3
|
-
export default (pluginManager)
|
|
3
|
+
export default function BigWigAdapterF(pluginManager) {
|
|
4
4
|
pluginManager.addAdapterType(() => new AdapterType({
|
|
5
5
|
name: 'BigWigAdapter',
|
|
6
6
|
displayName: 'BigWig adapter',
|
|
@@ -12,4 +12,4 @@ export default (pluginManager) => {
|
|
|
12
12
|
],
|
|
13
13
|
getAdapterClass: () => import('./BigWigAdapter').then(r => r.default),
|
|
14
14
|
}));
|
|
15
|
-
}
|
|
15
|
+
}
|
|
@@ -1,2 +1,2 @@
|
|
|
1
1
|
import PluginManager from '@jbrowse/core/PluginManager';
|
|
2
|
-
export default function (pm: PluginManager): void;
|
|
2
|
+
export default function CreateMultiWiggleExtensionF(pm: PluginManager): void;
|
|
@@ -2,7 +2,7 @@ import { lazy } from 'react';
|
|
|
2
2
|
import { readConfObject } from '@jbrowse/core/configuration';
|
|
3
3
|
import { getSession, isSessionWithAddTracks } from '@jbrowse/core/util';
|
|
4
4
|
const ConfirmDialog = lazy(() => import('./ConfirmDialog'));
|
|
5
|
-
export default function (pm) {
|
|
5
|
+
export default function CreateMultiWiggleExtensionF(pm) {
|
|
6
6
|
pm.addToExtensionPoint('TrackSelector-multiTrackMenuItems', (items, props) => {
|
|
7
7
|
const { session } = props;
|
|
8
8
|
return [
|
|
@@ -1,11 +1,11 @@
|
|
|
1
1
|
import configSchema from './configSchema';
|
|
2
2
|
import DensityRenderer from './DensityRenderer';
|
|
3
3
|
import ReactComponent from '../WiggleRendering';
|
|
4
|
-
export default (pluginManager)
|
|
4
|
+
export default function DensityRendererF(pluginManager) {
|
|
5
5
|
pluginManager.addRendererType(() => new DensityRenderer({
|
|
6
6
|
name: 'DensityRenderer',
|
|
7
7
|
ReactComponent,
|
|
8
8
|
configSchema,
|
|
9
9
|
pluginManager,
|
|
10
10
|
}));
|
|
11
|
-
}
|
|
11
|
+
}
|
|
@@ -1,11 +1,11 @@
|
|
|
1
1
|
import configSchema from './configSchema';
|
|
2
2
|
import ReactComponent from '../WiggleRendering';
|
|
3
3
|
import LinePlotRenderer from './LinePlotRenderer';
|
|
4
|
-
export default (pluginManager)
|
|
4
|
+
export default function LinePlotRendererF(pluginManager) {
|
|
5
5
|
pluginManager.addRendererType(() => new LinePlotRenderer({
|
|
6
6
|
name: 'LinePlotRenderer',
|
|
7
7
|
ReactComponent,
|
|
8
8
|
configSchema,
|
|
9
9
|
pluginManager,
|
|
10
10
|
}));
|
|
11
|
-
}
|
|
11
|
+
}
|
|
@@ -1,9 +1,9 @@
|
|
|
1
1
|
import React from 'react';
|
|
2
2
|
declare const SetColorDialog: ({ model, handleClose, }: {
|
|
3
3
|
model: {
|
|
4
|
-
color?: string
|
|
5
|
-
posColor?: string
|
|
6
|
-
negColor?: string
|
|
4
|
+
color?: string;
|
|
5
|
+
posColor?: string;
|
|
6
|
+
negColor?: string;
|
|
7
7
|
setColor: (arg?: string) => void;
|
|
8
8
|
setPosColor: (arg?: string) => void;
|
|
9
9
|
setNegColor: (arg?: string) => void;
|
|
@@ -1,10 +1,6 @@
|
|
|
1
1
|
import React from 'react';
|
|
2
2
|
import { Feature } from '@jbrowse/core/util';
|
|
3
3
|
import { TooltipContentsComponent } from '../../Tooltip';
|
|
4
|
-
interface Props {
|
|
5
|
-
feature: Feature;
|
|
6
|
-
}
|
|
7
|
-
declare const TooltipContents: React.ForwardRefExoticComponent<Props & React.RefAttributes<HTMLDivElement>>;
|
|
8
4
|
type Coord = [number, number];
|
|
9
5
|
declare const WiggleTooltip: (props: {
|
|
10
6
|
model: {
|
|
@@ -1,6 +1,5 @@
|
|
|
1
1
|
import PluginManager from '@jbrowse/core/PluginManager';
|
|
2
|
-
|
|
3
|
-
export default _default;
|
|
2
|
+
export default function LinearWiggleDisplayF(pluginManager: PluginManager): void;
|
|
4
3
|
export { default as Tooltip } from './components/Tooltip';
|
|
5
4
|
export { default as ReactComponent } from './components/WiggleDisplayComponent';
|
|
6
5
|
export { default as modelFactory } from './models/model';
|
|
@@ -2,7 +2,7 @@ import DisplayType from '@jbrowse/core/pluggableElementTypes/DisplayType';
|
|
|
2
2
|
import configSchemaFactory from './models/configSchema';
|
|
3
3
|
import modelFactory from './models/model';
|
|
4
4
|
import { lazy } from 'react';
|
|
5
|
-
export default (pluginManager)
|
|
5
|
+
export default function LinearWiggleDisplayF(pluginManager) {
|
|
6
6
|
pluginManager.addDisplayType(() => {
|
|
7
7
|
const configSchema = configSchemaFactory(pluginManager);
|
|
8
8
|
const stateModel = modelFactory(pluginManager, configSchema);
|
|
@@ -16,7 +16,7 @@ export default (pluginManager) => {
|
|
|
16
16
|
ReactComponent: lazy(() => import('./components/WiggleDisplayComponent')),
|
|
17
17
|
});
|
|
18
18
|
});
|
|
19
|
-
}
|
|
19
|
+
}
|
|
20
20
|
export { default as Tooltip } from './components/Tooltip';
|
|
21
21
|
export { default as ReactComponent } from './components/WiggleDisplayComponent';
|
|
22
22
|
export { default as modelFactory } from './models/model';
|
|
@@ -1,11 +1,11 @@
|
|
|
1
1
|
import configSchema from './configSchema';
|
|
2
2
|
import ReactComponent from '../MultiWiggleRendering';
|
|
3
3
|
import MultiDensityRenderer from './MultiDensityRenderer';
|
|
4
|
-
export default (pluginManager)
|
|
4
|
+
export default function MultiDensityRendererF(pluginManager) {
|
|
5
5
|
pluginManager.addRendererType(() => new MultiDensityRenderer({
|
|
6
6
|
name: 'MultiDensityRenderer',
|
|
7
7
|
ReactComponent,
|
|
8
8
|
configSchema,
|
|
9
9
|
pluginManager,
|
|
10
10
|
}));
|
|
11
|
-
}
|
|
11
|
+
}
|
|
@@ -1,11 +1,11 @@
|
|
|
1
1
|
import ReactComponent from '../MultiWiggleRendering';
|
|
2
2
|
import MultiLineRenderer from './MultiLineRenderer';
|
|
3
3
|
import configSchema from './configSchema';
|
|
4
|
-
export default (pluginManager)
|
|
4
|
+
export default function MultiLineRendererF(pluginManager) {
|
|
5
5
|
pluginManager.addRendererType(() => new MultiLineRenderer({
|
|
6
6
|
name: 'MultiLineRenderer',
|
|
7
7
|
ReactComponent,
|
|
8
8
|
configSchema,
|
|
9
9
|
pluginManager,
|
|
10
10
|
}));
|
|
11
|
-
}
|
|
11
|
+
}
|
|
@@ -1,6 +1,7 @@
|
|
|
1
|
+
import { getFillProps } from '@jbrowse/core/util';
|
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|
import React from 'react';
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const RectBg = (props) => {
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|
const { color = 'rgb(255,255,255,0.8)' } = props;
|
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|
-
return React.createElement("rect", { ...props,
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|
+
return React.createElement("rect", { ...props, ...getFillProps(color) });
|
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|
};
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|
export default RectBg;
|
|
@@ -2,13 +2,6 @@ import React from 'react';
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|
import { Feature } from '@jbrowse/core/util';
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|
import { Source } from '../../util';
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import { TooltipContentsComponent } from '../../Tooltip';
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interface Props {
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model: {
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sources: Source[];
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-
};
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feature: Feature;
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}
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-
declare const TooltipContents: React.ForwardRefExoticComponent<Props & React.RefAttributes<HTMLDivElement>>;
|
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|
type Coord = [number, number];
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|
declare const WiggleTooltip: (props: {
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model: {
|
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@@ -6,20 +6,15 @@ import ColorLegend from './ColorLegend';
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|
import ScoreLegend from './ScoreLegend';
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7
|
import { getOffset } from './util';
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|
const Wrapper = observer(function ({ children, model, exportSVG, }) {
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-
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-
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-
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pointerEvents: 'none',
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height,
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-
width: getContainingView(model).width,
|
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-
} }, children));
|
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|
-
}
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9
|
+
const { height } = model;
|
|
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|
+
return exportSVG ? (children) : (React.createElement("svg", { style: {
|
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position: 'absolute',
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top: 0,
|
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left: 0,
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pointerEvents: 'none',
|
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height,
|
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width: getContainingView(model).width,
|
|
17
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+
} }, children));
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|
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18
|
});
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|
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19
|
export const YScaleBars = observer(function (props) {
|
|
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20
|
const { model, orientation, exportSVG } = props;
|
|
@@ -2,7 +2,7 @@ import DisplayType from '@jbrowse/core/pluggableElementTypes/DisplayType';
|
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|
2
2
|
import configSchemaFactory from './models/configSchema';
|
|
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|
import modelFactory from './models/model';
|
|
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4
|
import { lazy } from 'react';
|
|
5
|
-
export default (pluginManager)
|
|
5
|
+
export default function MultiLinearWiggleDisplayF(pluginManager) {
|
|
6
6
|
pluginManager.addDisplayType(() => {
|
|
7
7
|
const configSchema = configSchemaFactory(pluginManager);
|
|
8
8
|
return new DisplayType({
|
|
@@ -15,4 +15,4 @@ export default (pluginManager) => {
|
|
|
15
15
|
ReactComponent: lazy(() => import('./components/WiggleDisplayComponent')),
|
|
16
16
|
});
|
|
17
17
|
});
|
|
18
|
-
}
|
|
18
|
+
}
|
|
@@ -1,7 +1,7 @@
|
|
|
1
1
|
import { createBaseTrackModel } from '@jbrowse/core/pluggableElementTypes/models';
|
|
2
2
|
import TrackType from '@jbrowse/core/pluggableElementTypes/TrackType';
|
|
3
3
|
import configSchemaF from './configSchema';
|
|
4
|
-
export default (pluginManager)
|
|
4
|
+
export default function MultiQuantitativeTrackF(pluginManager) {
|
|
5
5
|
pluginManager.addTrackType(() => {
|
|
6
6
|
const configSchema = configSchemaF(pluginManager);
|
|
7
7
|
return new TrackType({
|
|
@@ -11,4 +11,4 @@ export default (pluginManager) => {
|
|
|
11
11
|
stateModel: createBaseTrackModel(pluginManager, 'MultiQuantitativeTrack', configSchema),
|
|
12
12
|
});
|
|
13
13
|
});
|
|
14
|
-
}
|
|
14
|
+
}
|
|
@@ -1,11 +1,11 @@
|
|
|
1
1
|
import ReactComponent from '../MultiWiggleRendering';
|
|
2
2
|
import MultiRowLineRenderer from './MultiRowLineRenderer';
|
|
3
3
|
import configSchema from './configSchema';
|
|
4
|
-
export default (pluginManager)
|
|
4
|
+
export default function MultiRowLineRendererF(pluginManager) {
|
|
5
5
|
pluginManager.addRendererType(() => new MultiRowLineRenderer({
|
|
6
6
|
name: 'MultiRowLineRenderer',
|
|
7
7
|
ReactComponent,
|
|
8
8
|
configSchema,
|
|
9
9
|
pluginManager,
|
|
10
10
|
}));
|
|
11
|
-
}
|
|
11
|
+
}
|
|
@@ -1,11 +1,11 @@
|
|
|
1
1
|
import ReactComponent from '../MultiWiggleRendering';
|
|
2
2
|
import MultiRowXYPlotRenderer from './MultiRowXYPlotRenderer';
|
|
3
3
|
import configSchema from './configSchema';
|
|
4
|
-
export default (pluginManager)
|
|
4
|
+
export default function MultiRowXYPlotRendererF(pluginManager) {
|
|
5
5
|
pluginManager.addRendererType(() => new MultiRowXYPlotRenderer({
|
|
6
6
|
name: 'MultiRowXYPlotRenderer',
|
|
7
7
|
ReactComponent,
|
|
8
8
|
configSchema,
|
|
9
9
|
pluginManager,
|
|
10
10
|
}));
|
|
11
|
-
}
|
|
11
|
+
}
|
|
@@ -1,6 +1,6 @@
|
|
|
1
1
|
import configSchema from './configSchema';
|
|
2
2
|
import AdapterType from '@jbrowse/core/pluggableElementTypes/AdapterType';
|
|
3
|
-
export default (pluginManager)
|
|
3
|
+
export default function MultiWiggleAdapterF(pluginManager) {
|
|
4
4
|
pluginManager.addAdapterType(() => new AdapterType({
|
|
5
5
|
name: 'MultiWiggleAdapter',
|
|
6
6
|
displayName: 'Multi-wiggle adapter',
|
|
@@ -15,4 +15,4 @@ export default (pluginManager) => {
|
|
|
15
15
|
},
|
|
16
16
|
getAdapterClass: () => import('./MultiWiggleAdapter').then(r => r.default),
|
|
17
17
|
}));
|
|
18
|
-
}
|
|
18
|
+
}
|
|
@@ -2,10 +2,10 @@ import { AddTrackWorkflowType } from '@jbrowse/core/pluggableElementTypes';
|
|
|
2
2
|
import { types } from 'mobx-state-tree';
|
|
3
3
|
// locals
|
|
4
4
|
import { lazy } from 'react';
|
|
5
|
-
export default (pm)
|
|
5
|
+
export default function MultiWiggleAddTrackWorkflowF(pm) {
|
|
6
6
|
pm.addAddTrackWorkflowType(() => new AddTrackWorkflowType({
|
|
7
7
|
name: 'Multi-wiggle track',
|
|
8
8
|
ReactComponent: lazy(() => import('./AddTrackWorkflow')),
|
|
9
9
|
stateModel: types.model({}),
|
|
10
10
|
}));
|
|
11
|
-
}
|
|
11
|
+
}
|
|
@@ -1,11 +1,11 @@
|
|
|
1
1
|
import ReactComponent from '../MultiWiggleRendering';
|
|
2
2
|
import MultiXYPlotRenderer from './MultiXYPlotRenderer';
|
|
3
3
|
import configSchema from './configSchema';
|
|
4
|
-
export default (pluginManager)
|
|
4
|
+
export default function MultiXYPlotRendererF(pluginManager) {
|
|
5
5
|
pluginManager.addRendererType(() => new MultiXYPlotRenderer({
|
|
6
6
|
name: 'MultiXYPlotRenderer',
|
|
7
7
|
ReactComponent,
|
|
8
8
|
configSchema,
|
|
9
9
|
pluginManager,
|
|
10
10
|
}));
|
|
11
|
-
}
|
|
11
|
+
}
|
|
@@ -1,7 +1,7 @@
|
|
|
1
1
|
import { createBaseTrackModel } from '@jbrowse/core/pluggableElementTypes/models';
|
|
2
2
|
import TrackType from '@jbrowse/core/pluggableElementTypes/TrackType';
|
|
3
3
|
import configSchemaF from './configSchema';
|
|
4
|
-
export default (pluginManager)
|
|
4
|
+
export default function QuantitativeTrackF(pluginManager) {
|
|
5
5
|
pluginManager.addTrackType(() => {
|
|
6
6
|
const configSchema = configSchemaF(pluginManager);
|
|
7
7
|
return new TrackType({
|
|
@@ -11,4 +11,4 @@ export default (pluginManager) => {
|
|
|
11
11
|
stateModel: createBaseTrackModel(pluginManager, 'QuantitativeTrack', configSchema),
|
|
12
12
|
});
|
|
13
13
|
});
|
|
14
|
-
}
|
|
14
|
+
}
|
package/esm/Tooltip.d.ts
CHANGED
|
@@ -9,11 +9,11 @@ declare const Tooltip: ({ model, height, clientMouseCoord, offsetMouseCoord, cli
|
|
|
9
9
|
model: {
|
|
10
10
|
featureUnderMouse: Feature;
|
|
11
11
|
};
|
|
12
|
-
useClientY?: boolean
|
|
12
|
+
useClientY?: boolean;
|
|
13
13
|
height: number;
|
|
14
14
|
clientMouseCoord: Coord;
|
|
15
15
|
offsetMouseCoord: Coord;
|
|
16
|
-
clientRect?: DOMRect
|
|
16
|
+
clientRect?: DOMRect;
|
|
17
17
|
TooltipContents: TooltipContentsComponent;
|
|
18
18
|
}) => React.JSX.Element | null;
|
|
19
19
|
export default Tooltip;
|
package/esm/Tooltip.js
CHANGED
|
@@ -39,6 +39,7 @@ const Tooltip = observer(function Tooltip({ model, height, clientMouseCoord, off
|
|
|
39
39
|
const { classes } = useStyles();
|
|
40
40
|
const { refs, floatingStyles, context } = useFloating({
|
|
41
41
|
placement: 'right',
|
|
42
|
+
strategy: 'fixed',
|
|
42
43
|
});
|
|
43
44
|
const x = clientMouseCoord[0] + 5;
|
|
44
45
|
const y = useClientY ? clientMouseCoord[1] : (clientRect === null || clientRect === void 0 ? void 0 : clientRect.top) || 0;
|
|
@@ -1,6 +1,5 @@
|
|
|
1
1
|
import PluginManager from '@jbrowse/core/PluginManager';
|
|
2
|
-
|
|
3
|
-
export default _default;
|
|
2
|
+
export default function XYPlotRendererF(pluginManager: PluginManager): void;
|
|
4
3
|
export { default as XYPlotRenderer } from './XYPlotRenderer';
|
|
5
4
|
export { default as ReactComponent } from '../WiggleRendering';
|
|
6
5
|
export { default as configSchema } from './configSchema';
|
|
@@ -1,14 +1,14 @@
|
|
|
1
1
|
import ReactComponent from '../WiggleRendering';
|
|
2
2
|
import XYPlotRenderer from './XYPlotRenderer';
|
|
3
3
|
import configSchema from './configSchema';
|
|
4
|
-
export default (pluginManager)
|
|
4
|
+
export default function XYPlotRendererF(pluginManager) {
|
|
5
5
|
pluginManager.addRendererType(() => new XYPlotRenderer({
|
|
6
6
|
name: 'XYPlotRenderer',
|
|
7
7
|
ReactComponent,
|
|
8
8
|
configSchema,
|
|
9
9
|
pluginManager,
|
|
10
10
|
}));
|
|
11
|
-
}
|
|
11
|
+
}
|
|
12
12
|
export { default as XYPlotRenderer } from './XYPlotRenderer';
|
|
13
13
|
export { default as ReactComponent } from '../WiggleRendering';
|
|
14
14
|
export { default as configSchema } from './configSchema';
|
package/esm/index.js
CHANGED
|
@@ -17,7 +17,7 @@ import MultiDensityRendererF from './MultiDensityRenderer';
|
|
|
17
17
|
import MultiLineRendererF from './MultiLineRenderer';
|
|
18
18
|
import MultiRowLineRendererF from './MultiRowLineRenderer';
|
|
19
19
|
import CreateMultiWiggleExtensionF from './CreateMultiWiggleExtension';
|
|
20
|
-
import
|
|
20
|
+
import MultiWiggleAddTrackWorkflowF from './MultiWiggleAddTrackWorkflow';
|
|
21
21
|
import * as utils from './util';
|
|
22
22
|
import { WiggleGetGlobalQuantitativeStats, WiggleGetMultiRegionQuantitativeStats, MultiWiggleGetSources, } from './WiggleRPC/rpcMethods';
|
|
23
23
|
import { ReactComponent as LinearWiggleDisplayReactComponent, modelFactory as linearWiggleDisplayModelFactory, } from './LinearWiggleDisplay';
|
|
@@ -51,7 +51,7 @@ export default class WigglePlugin extends Plugin {
|
|
|
51
51
|
MultiDensityRendererF(pm);
|
|
52
52
|
MultiLineRendererF(pm);
|
|
53
53
|
MultiRowLineRendererF(pm);
|
|
54
|
-
|
|
54
|
+
MultiWiggleAddTrackWorkflowF(pm);
|
|
55
55
|
CreateMultiWiggleExtensionF(pm);
|
|
56
56
|
pm.addToExtensionPoint('Core-guessAdapterForLocation', (cb) => {
|
|
57
57
|
return (file, index, hint) => {
|
package/package.json
CHANGED
|
@@ -1,6 +1,6 @@
|
|
|
1
1
|
{
|
|
2
2
|
"name": "@jbrowse/plugin-wiggle",
|
|
3
|
-
"version": "2.
|
|
3
|
+
"version": "2.11.1",
|
|
4
4
|
"description": "JBrowse 2 wiggle adapters, tracks, etc.",
|
|
5
5
|
"keywords": [
|
|
6
6
|
"jbrowse",
|
|
@@ -52,7 +52,7 @@
|
|
|
52
52
|
"@jbrowse/plugin-data-management": "^2.0.0",
|
|
53
53
|
"@jbrowse/plugin-linear-genome-view": "^2.0.0",
|
|
54
54
|
"@mui/material": "^5.0.0",
|
|
55
|
-
"@mui/x-data-grid": "^
|
|
55
|
+
"@mui/x-data-grid": "^7.0.0",
|
|
56
56
|
"mobx": "^6.0.0",
|
|
57
57
|
"mobx-react": "^9.0.0",
|
|
58
58
|
"mobx-state-tree": "^5.0.0",
|
|
@@ -66,5 +66,5 @@
|
|
|
66
66
|
"distModule": "esm/index.js",
|
|
67
67
|
"srcModule": "src/index.ts",
|
|
68
68
|
"module": "esm/index.js",
|
|
69
|
-
"gitHead": "
|
|
69
|
+
"gitHead": "11b28d66d782eb06f92ccb993108bb6c3c82819e"
|
|
70
70
|
}
|
/package/dist/{MultiWiggleAddTrackWidget → MultiWiggleAddTrackWorkflow}/AddTrackWorkflow.d.ts
RENAMED
|
File without changes
|
|
File without changes
|
/package/esm/{MultiWiggleAddTrackWidget → MultiWiggleAddTrackWorkflow}/AddTrackWorkflow.d.ts
RENAMED
|
File without changes
|
|
File without changes
|