npm - @jbrowse/plugin-linear-genome-view - Versions diffs - 2.4.0 → 2.4.2 - Mend

@jbrowse/plugin-linear-genome-view 2.4.0 → 2.4.2

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.

Files changed (176) hide show

package/dist/LinearBareDisplay/index.js CHANGED Viewed

@@ -4,9 +4,7 @@ exports.stateModelFactory = exports.configSchemaFactory = void 0;
 const pluggableElementTypes_1 = require("@jbrowse/core/pluggableElementTypes");
 // locals
 const configSchema_1 = require("./configSchema");
-Object.defineProperty(exports, "configSchemaFactory", { enumerable: true, get: function () { return configSchema_1.configSchemaFactory; } });
 const model_1 = require("./model");
-Object.defineProperty(exports, "stateModelFactory", { enumerable: true, get: function () { return model_1.stateModelFactory; } });
 const BaseLinearDisplay_1 = require("../BaseLinearDisplay/");
 exports.default = (pluginManager) => {
     pluginManager.addDisplayType(() => {
@@ -14,6 +12,7 @@ exports.default = (pluginManager) => {
         return new pluggableElementTypes_1.DisplayType({
             name: 'LinearBareDisplay',
             configSchema,
+            displayName: 'Bare feature display',
             stateModel: (0, model_1.stateModelFactory)(configSchema),
             trackType: 'BasicTrack',
             viewType: 'LinearGenomeView',
@@ -21,4 +20,8 @@ exports.default = (pluginManager) => {
         });
     });
 };
+var configSchema_2 = require("./configSchema");
+Object.defineProperty(exports, "configSchemaFactory", { enumerable: true, get: function () { return configSchema_2.configSchemaFactory; } });
+var model_2 = require("./model");
+Object.defineProperty(exports, "stateModelFactory", { enumerable: true, get: function () { return model_2.stateModelFactory; } });
 //# sourceMappingURL=index.js.map

package/dist/LinearBareDisplay/index.js.map CHANGED Viewed

	@@ -1 +1 @@
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1	+ {"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/LinearBareDisplay/index.ts"],"names":[],"mappings":";;;AACA,+EAAiE;AAEjE,SAAS;AACT,iDAAoD;AACpD,mCAA2C;AAC3C,6DAAkE;AAElE,kBAAe,CAAC,aAA4B,EAAE,EAAE;IAC9C,aAAa,CAAC,cAAc,CAAC,GAAG,EAAE;QAChC,MAAM,YAAY,GAAG,IAAA,kCAAmB,EAAC,aAAa,CAAC,CAAA;QACvD,OAAO,IAAI,mCAAW,CAAC;YACrB,IAAI,EAAE,mBAAmB;YACzB,YAAY;YACZ,WAAW,EAAE,sBAAsB;YACnC,UAAU,EAAE,IAAA,yBAAiB,EAAC,YAAY,CAAC;YAC3C,SAAS,EAAE,YAAY;YACvB,QAAQ,EAAE,kBAAkB;YAC5B,cAAc,EAAE,8CAA0B;SAC3C,CAAC,CAAA;IACJ,CAAC,CAAC,CAAA;AACJ,CAAC,CAAA;AAED,+CAAoD;AAA3C,mHAAA,mBAAmB,OAAA;AAC5B,iCAA2C;AAAlC,0GAAA,iBAAiB,OAAA"}

package/dist/LinearBareDisplay/model.d.ts CHANGED Viewed

@@ -125,10 +125,10 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
     message: string;
     featureIdUnderMouse: string | undefined;
     contextMenuFeature: import("@jbrowse/core/util").Feature | undefined;
-    estimatedRegionStatsP: Promise<import("@jbrowse/core/data_adapters/BaseAdapter").Stats> | undefined;
-    estimatedRegionStats: import("@jbrowse/core/data_adapters/BaseAdapter").Stats | undefined;
+    estimatedRegionsStatsP: Promise<import("@jbrowse/core/data_adapters/BaseAdapter").Stats> | undefined;
+    estimatedRegionsStats: import("@jbrowse/core/data_adapters/BaseAdapter").Stats | undefined;
 } & {
-    readonly height: any;
+    readonly height: number;
     readonly blockType: "dynamicBlocks" | "staticBlocks";
     readonly blockDefinitions: import("@jbrowse/core/util/blockTypes").BlockSet;
 } & {
@@ -139,7 +139,7 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
 } & {
     readonly features: import("@jbrowse/core/util/compositeMap").default<string, import("@jbrowse/core/util").Feature>;
     readonly featureUnderMouse: import("@jbrowse/core/util").Feature | undefined;
-    getFeatureOverlapping(blockKey: string, x: number, y: number): any;
+    getFeatureOverlapping(blockKey: string, x: number, y: number): string | undefined;
     getFeatureByID(blockKey: string, id: string): [number, number, number, number] | undefined;
     searchFeatureByID(id: string): [number, number, number, number] | undefined;
     readonly currentBytesRequested: number;
@@ -149,19 +149,16 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
     readonly maxAllowableBytes: number;
 } & {
     setMessage(message: string): void;
+} & {
     afterAttach(): void;
-    estimateRegionsStats(regions: import("@jbrowse/core/util").Region[], opts: {
-        headers?: Record<string, string> | undefined;
-        signal?: AbortSignal | undefined;
-        filters?: string[] | undefined;
-    }): Promise<{}>;
-    setRegionStatsP(p?: Promise<import("@jbrowse/core/data_adapters/BaseAdapter").Stats> | undefined): void;
-    setRegionStats(estimatedRegionStats?: import("@jbrowse/core/data_adapters/BaseAdapter").Stats | undefined): void;
-    clearRegionStats(): void;
-    setHeight(displayHeight: number): any;
+    estimateRegionsStats(): Promise<import("@jbrowse/core/data_adapters/BaseAdapter").Stats>;
+    setRegionsStatsP(arg: any): void;
+    setRegionsStats(estimatedRegionsStats?: import("@jbrowse/core/data_adapters/BaseAdapter").Stats | undefined): void;
+    clearRegionsStats(): void;
+    setHeight(displayHeight: number): number;
     resizeHeight(distance: number): number;
     setScrollTop(scrollTop: number): void;
-    updateStatsLimit(stats: import("@jbrowse/core/data_adapters/BaseAdapter").Stats): void;
+    updateStatsLimit(stats?: import("@jbrowse/core/data_adapters/BaseAdapter").Stats | undefined): void;
     addBlock(key: string, block: import("@jbrowse/core/util/blockTypes").BaseBlock): void;
     setCurrBpPerPx(n: number): void;
     deleteBlock(key: string): void;
@@ -175,18 +172,13 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
     readonly regionTooLargeReason: string;
 } & {
     reload(): Promise<void>;
+} & {
     afterAttach(): void;
 } & {
     regionCannotBeRenderedText(_region: import("@jbrowse/core/util").Region): "" | "Force load to see features";
     regionCannotBeRendered(_region: import("@jbrowse/core/util").Region): JSX.Element | null;
     trackMenuItems(): import("@jbrowse/core/ui").MenuItem[];
-    contextMenuItems(): {
-        label: string;
-        icon: import("@mui/material/OverridableComponent").OverridableComponent<import("@mui/material").SvgIconTypeMap<{}, "svg">> & {
-            muiName: string;
-        };
-        onClick: () => void;
-    }[];
+    contextMenuItems(): import("@jbrowse/core/ui").MenuItem[];
     renderProps(): any;
 } & {
     renderSvg(opts: import("../LinearGenomeView").ExportSvgOptions & {

package/dist/LinearBasicDisplay/components/SetMaxHeight.d.ts CHANGED Viewed

@@ -2,7 +2,7 @@
 declare function SetMaxHeightDlg({ model, handleClose, }: {
     model: {
         maxHeight?: number;
-        setMaxHeight: Function;
+        setMaxHeight: (arg?: number) => void;
     };
     handleClose: () => void;
 }): JSX.Element;

package/dist/LinearBasicDisplay/components/SetMaxHeight.js CHANGED Viewed

@@ -28,14 +28,11 @@ const mobx_react_1 = require("mobx-react");
 const ui_1 = require("@jbrowse/core/ui");
 const material_1 = require("@mui/material");
 const mui_1 = require("tss-react/mui");
-const useStyles = (0, mui_1.makeStyles)()(theme => ({
+const useStyles = (0, mui_1.makeStyles)()({
     root: {
         width: 500,
     },
-    field: {
-        margin: theme.spacing(2),
-    },
-}));
+});
 function SetMaxHeightDlg({ model, handleClose, }) {
     const { classes } = useStyles();
     const { maxHeight = '' } = model;

package/dist/LinearBasicDisplay/components/SetMaxHeight.js.map CHANGED Viewed

	@@ -1 +1 @@
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1	+ {"version":3,"file":"SetMaxHeight.js","sourceRoot":"","sources":["../../../src/LinearBasicDisplay/components/SetMaxHeight.tsx"],"names":[],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;AAAA,+CAAuC;AACvC,2CAAqC;AACrC,yCAAyC;AACzC,4CAMsB;AACtB,uCAA0C;AAE1C,MAAM,SAAS,GAAG,IAAA,gBAAU,GAAE,CAAC;IAC7B,IAAI,EAAE;QACJ,KAAK,EAAE,GAAG;KACX;CACF,CAAC,CAAA;AAEF,SAAS,eAAe,CAAC,EACvB,KAAK,EACL,WAAW,GAOZ;IACC,MAAM,EAAE,OAAO,EAAE,GAAG,SAAS,EAAE,CAAA;IAC/B,MAAM,EAAE,SAAS,GAAG,EAAE,EAAE,GAAG,KAAK,CAAA;IAChC,MAAM,CAAC,GAAG,EAAE,MAAM,CAAC,GAAG,IAAA,gBAAQ,EAAC,GAAG,SAAS,EAAE,CAAC,CAAA;IAE9C,OAAO,CACL,8BAAC,WAAM,IAAC,IAAI,QAAC,OAAO,EAAE,WAAW,EAAE,KAAK,EAAC,gBAAgB;QACvD,8BAAC,wBAAa,IAAC,SAAS,EAAE,OAAO,CAAC,IAAI;YACpC,8BAAC,qBAAU,qHAGE;YACb,8BAAC,oBAAS,IACR,KAAK,EAAE,GAAG,EACV,QAAQ,EAAE,KAAK,CAAC,EAAE,CAAC,MAAM,CAAC,KAAK,CAAC,MAAM,CAAC,KAAK,CAAC,EAC7C,WAAW,EAAC,iBAAiB,GAC7B;YACF,8BAAC,wBAAa;gBACZ,8BAAC,iBAAM,IACL,OAAO,EAAC,WAAW,EACnB,KAAK,EAAC,SAAS,EACf,IAAI,EAAC,QAAQ,EACb,SAAS,QACT,OAAO,EAAE,GAAG,EAAE;wBACZ,KAAK,CAAC,YAAY,CAChB,GAAG,KAAK,EAAE,IAAI,CAAC,MAAM,CAAC,KAAK,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,SAAS,CACrD,CAAA;wBACD,WAAW,EAAE,CAAA;oBACf,CAAC,aAGM;gBACT,8BAAC,iBAAM,IACL,OAAO,EAAC,WAAW,EACnB,KAAK,EAAC,WAAW,EACjB,OAAO,EAAE,GAAG,EAAE,CAAC,WAAW,EAAE,aAGrB,CACK,CACF,CACT,CACV,CAAA;AACH,CAAC;AAED,kBAAe,IAAA,qBAAQ,EAAC,eAAe,CAAC,CAAA"}

package/dist/LinearBasicDisplay/index.d.ts CHANGED Viewed

@@ -1,6 +1,5 @@
 import PluginManager from '@jbrowse/core/PluginManager';
-import configSchema from './configSchema';
-import modelFactory from './model';
 declare const _default: (pluginManager: PluginManager) => void;
 export default _default;
-export { modelFactory, configSchema };
+export { default as modelFactory } from './model';
+export { default as configSchema } from './configSchema';

package/dist/LinearBasicDisplay/index.js CHANGED Viewed

@@ -8,15 +8,13 @@ const pluggableElementTypes_1 = require("@jbrowse/core/pluggableElementTypes");
 const BaseLinearDisplay_1 = require("../BaseLinearDisplay");
 // locals
 const configSchema_1 = __importDefault(require("./configSchema"));
-exports.configSchema = configSchema_1.default;
 const model_1 = __importDefault(require("./model"));
-exports.modelFactory = model_1.default;
 exports.default = (pluginManager) => {
     pluginManager.addDisplayType(() => {
         const config = (0, configSchema_1.default)(pluginManager);
         return new pluggableElementTypes_1.DisplayType({
             name: 'LinearBasicDisplay',
-            displayName: 'Basic deature display',
+            displayName: 'Basic feature display',
             configSchema: config,
             stateModel: (0, model_1.default)(config),
             trackType: 'FeatureTrack',
@@ -25,4 +23,8 @@ exports.default = (pluginManager) => {
         });
     });
 };
+var model_2 = require("./model");
+Object.defineProperty(exports, "modelFactory", { enumerable: true, get: function () { return __importDefault(model_2).default; } });
+var configSchema_2 = require("./configSchema");
+Object.defineProperty(exports, "configSchema", { enumerable: true, get: function () { return __importDefault(configSchema_2).default; } });
 //# sourceMappingURL=index.js.map

package/dist/LinearBasicDisplay/index.js.map CHANGED Viewed

	@@ -1 +1 @@
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1	+ {"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/LinearBasicDisplay/index.ts"],"names":[],"mappings":";;;;;;AACA,+EAAiE;AACjE,4DAAiE;AAEjE,SAAS;AACT,kEAAyC;AACzC,oDAAkC;AAElC,kBAAe,CAAC,aAA4B,EAAE,EAAE;IAC9C,aAAa,CAAC,cAAc,CAAC,GAAG,EAAE;QAChC,MAAM,MAAM,GAAG,IAAA,sBAAY,EAAC,aAAa,CAAC,CAAA;QAC1C,OAAO,IAAI,mCAAW,CAAC;YACrB,IAAI,EAAE,oBAAoB;YAC1B,WAAW,EAAE,uBAAuB;YACpC,YAAY,EAAE,MAAM;YACpB,UAAU,EAAE,IAAA,eAAY,EAAC,MAAM,CAAC;YAChC,SAAS,EAAE,cAAc;YACzB,QAAQ,EAAE,kBAAkB;YAC5B,cAAc,EAAE,8CAA0B;SAC3C,CAAC,CAAA;IACJ,CAAC,CAAC,CAAA;AACJ,CAAC,CAAA;AAED,iCAAiD;AAAxC,sHAAA,OAAO,OAAgB;AAChC,+CAAwD;AAA/C,6HAAA,OAAO,OAAgB"}

package/dist/LinearBasicDisplay/model.d.ts CHANGED Viewed

@@ -139,9 +139,6 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
     renderProps(): any;
     readonly rendererType: import("@jbrowse/core/pluggableElementTypes").RendererType;
     readonly DisplayMessageComponent: import("react").FC<any> | undefined;
-    /**
-     * #method
-     */
     trackMenuItems(): MenuItem[];
     readonly viewMenuActions: MenuItem[];
     regionCannotBeRendered(): undefined;
@@ -155,10 +152,10 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
     message: string;
     featureIdUnderMouse: string | undefined;
     contextMenuFeature: import("@jbrowse/core/util").Feature | undefined;
-    estimatedRegionStatsP: Promise<import("@jbrowse/core/data_adapters/BaseAdapter").Stats> | undefined;
-    estimatedRegionStats: import("@jbrowse/core/data_adapters/BaseAdapter").Stats | undefined;
+    estimatedRegionsStatsP: Promise<import("@jbrowse/core/data_adapters/BaseAdapter").Stats> | undefined;
+    estimatedRegionsStats: import("@jbrowse/core/data_adapters/BaseAdapter").Stats | undefined;
 } & {
-    readonly height: any;
+    readonly height: number;
     readonly blockType: "dynamicBlocks" | "staticBlocks";
     readonly blockDefinitions: import("@jbrowse/core/util/blockTypes").BlockSet;
 } & {
@@ -169,7 +166,7 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
 } & {
     readonly features: import("@jbrowse/core/util/compositeMap").default<string, import("@jbrowse/core/util").Feature>;
     readonly featureUnderMouse: import("@jbrowse/core/util").Feature | undefined;
-    getFeatureOverlapping(blockKey: string, x: number, y: number): any;
+    getFeatureOverlapping(blockKey: string, x: number, y: number): string | undefined;
     getFeatureByID(blockKey: string, id: string): [number, number, number, number] | undefined;
     searchFeatureByID(id: string): [number, number, number, number] | undefined;
     readonly currentBytesRequested: number;
@@ -179,19 +176,16 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
     readonly maxAllowableBytes: number;
 } & {
     setMessage(message: string): void;
+} & {
     afterAttach(): void;
-    estimateRegionsStats(regions: import("@jbrowse/core/util").Region[], opts: {
-        headers?: Record<string, string> | undefined;
-        signal?: AbortSignal | undefined;
-        filters?: string[] | undefined;
-    }): Promise<{}>;
-    setRegionStatsP(p?: Promise<import("@jbrowse/core/data_adapters/BaseAdapter").Stats> | undefined): void;
-    setRegionStats(estimatedRegionStats?: import("@jbrowse/core/data_adapters/BaseAdapter").Stats | undefined): void;
-    clearRegionStats(): void;
-    setHeight(displayHeight: number): any;
+    estimateRegionsStats(): Promise<import("@jbrowse/core/data_adapters/BaseAdapter").Stats>;
+    setRegionsStatsP(arg: any): void;
+    setRegionsStats(estimatedRegionsStats?: import("@jbrowse/core/data_adapters/BaseAdapter").Stats | undefined): void;
+    clearRegionsStats(): void;
+    setHeight(displayHeight: number): number;
     resizeHeight(distance: number): number;
     setScrollTop(scrollTop: number): void;
-    updateStatsLimit(stats: import("@jbrowse/core/data_adapters/BaseAdapter").Stats): void;
+    updateStatsLimit(stats?: import("@jbrowse/core/data_adapters/BaseAdapter").Stats | undefined): void;
     addBlock(key: string, block: import("@jbrowse/core/util/blockTypes").BaseBlock): void;
     setCurrBpPerPx(n: number): void;
     deleteBlock(key: string): void;
@@ -205,18 +199,13 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
     readonly regionTooLargeReason: string;
 } & {
     reload(): Promise<void>;
+} & {
     afterAttach(): void;
 } & {
     regionCannotBeRenderedText(_region: import("@jbrowse/core/util").Region): "" | "Force load to see features";
     regionCannotBeRendered(_region: import("@jbrowse/core/util").Region): JSX.Element | null;
     trackMenuItems(): MenuItem[];
-    contextMenuItems(): {
-        label: string;
-        icon: import("@mui/material/OverridableComponent").OverridableComponent<import("@mui/material").SvgIconTypeMap<{}, "svg">> & {
-            muiName: string;
-        };
-        onClick: () => void;
-    }[];
+    contextMenuItems(): MenuItem[];
     renderProps(): any;
 } & {
     renderSvg(opts: import("../LinearGenomeView").ExportSvgOptions & {
@@ -269,7 +258,7 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
     /**
      * #action
      */
-    setMaxHeight(val: number): void;
+    setMaxHeight(val?: number): void;
 } & {
     /**
      * #method

package/dist/LinearBasicDisplay/model.js.map CHANGED Viewed

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package/dist/LinearGenomeView/components/ExportSvgDialog.js CHANGED Viewed

@@ -56,7 +56,7 @@ function ExportSvgDlg({ model, handleClose, }) {
                 react_1.default.createElement(material_1.MenuItem, { value: "none" }, "None")),
             react_1.default.createElement("br", null),
             session.allThemes ? (react_1.default.createElement(material_1.TextField, { select: true, label: "Theme", variant: "outlined", value: themeName, onChange: event => setThemeName(event.target.value) }, Object.entries(session.allThemes()).map(([key, val]) => (react_1.default.createElement(material_1.MenuItem, { key: key, value: key },
-            // @ts-ignore
+            // @ts-expect-error
             val.name || '(Unknown name)'))))) : null,
             offscreenCanvas ? (react_1.default.createElement(material_1.FormControlLabel, { control: react_1.default.createElement(material_1.Checkbox, { checked: rasterizeLayers, onChange: () => setRasterizeLayers(val => !val) }), label: "Rasterize canvas based tracks? File may be much larger if this is turned off" })) : (react_1.default.createElement(material_1.Typography, null, "Note: rasterizing layers not yet supported in this browser, so SVG size may be large"))),
         react_1.default.createElement(material_1.DialogActions, null,

package/dist/LinearGenomeView/components/ExportSvgDialog.js.map CHANGED Viewed

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1	+ {"version":3,"file":"ExportSvgDialog.js","sourceRoot":"","sources":["../../../src/LinearGenomeView/components/ExportSvgDialog.tsx"],"names":[],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;AAAA,+CAAuC;AACvC,4CAUsB;AACtB,yCAAuD;AACvD,6CAAgE;AAKhE,SAAS,cAAc;IACrB,OAAO,CACL;QACE,8BAAC,2BAAgB,IAAC,IAAI,EAAE,EAAE,EAAE,KAAK,EAAE,EAAE,WAAW,EAAE,EAAE,EAAE,GAAI;QAC1D,8BAAC,qBAAU,IAAC,OAAO,EAAC,QAAQ,mBAA0B,CAClD,CACP,CAAA;AACH,CAAC;AAED,SAAS,WAAW,CAAI,GAAW,EAAE,GAAM;IACzC,OAAO,IAAA,sBAAe,EAAC,MAAM,GAAG,GAAG,EAAE,GAAG,CAAC,CAAA;AAC3C,CAAC;AAED,SAAwB,YAAY,CAAC,EACnC,KAAK,EACL,WAAW,GAIZ;IACC,MAAM,OAAO,GAAG,IAAA,iBAAU,EAAC,KAAK,CAAC,CAAA;IACjC,MAAM,eAAe,GAAG,OAAO,eAAe,KAAK,WAAW,CAAA;IAC9D,MAAM,CAAC,eAAe,EAAE,kBAAkB,CAAC,GAAG,IAAA,gBAAQ,EAAC,eAAe,CAAC,CAAA;IACvE,MAAM,CAAC,OAAO,EAAE,UAAU,CAAC,GAAG,IAAA,gBAAQ,EAAC,KAAK,CAAC,CAAA;IAC7C,MAAM,CAAC,KAAK,EAAE,QAAQ,CAAC,GAAG,IAAA,gBAAQ,GAAW,CAAA;IAC7C,MAAM,CAAC,QAAQ,EAAE,WAAW,CAAC,GAAG,WAAW,CAAC,MAAM,EAAE,aAAa,CAAC,CAAA;IAClE,MAAM,CAAC,WAAW,EAAE,cAAc,CAAC,GAAG,WAAW,CAAC,aAAa,EAAE,QAAQ,CAAC,CAAA;IAC1E,MAAM,CAAC,SAAS,EAAE,YAAY,CAAC,GAAG,WAAW,CAC3C,OAAO,EACP,OAAO,CAAC,SAAS,IAAI,SAAS,CAC/B,CAAA;IACD,OAAO,CACL,8BAAC,WAAM,IAAC,IAAI,QAAC,OAAO,EAAE,WAAW,EAAE,KAAK,EAAC,YAAY;QACnD,8BAAC,wBAAa;YACX,KAAK,CAAC,CAAC,CAAC,CACP,8BAAC,iBAAY,IAAC,KAAK,EAAE,KAAK,GAAI,CAC/B,CAAC,CAAC,CAAC,OAAO,CAAC,CAAC,CAAC,CACZ,8BAAC,cAAc,OAAG,CACnB,CAAC,CAAC,CAAC,IAAI;YACR,8BAAC,oBAAS,IACR,UAAU,EAAC,UAAU,EACrB,KAAK,EAAE,QAAQ,EACf,QAAQ,EAAE,KAAK,CAAC,EAAE,CAAC,WAAW,CAAC,KAAK,CAAC,MAAM,CAAC,KAAK,CAAC,GAClD;YACF,yCAAM;YACN,8BAAC,oBAAS,IACR,MAAM,QACN,KAAK,EAAC,yBAAyB,EAC/B,OAAO,EAAC,UAAU,EAClB,KAAK,EAAE,EAAE,KAAK,EAAE,GAAG,EAAE,EACrB,KAAK,EAAE,WAAW,EAClB,QAAQ,EAAE,KAAK,CAAC,EAAE,CAAC,cAAc,CAAC,KAAK,CAAC,MAAM,CAAC,KAAK,CAAC;gBAErD,8BAAC,mBAAQ,IAAC,KAAK,EAAC,QAAQ,aAAkB;gBAC1C,8BAAC,mBAAQ,IAAC,KAAK,EAAC,SAAS,cAAmB;gBAC5C,8BAAC,mBAAQ,IAAC,KAAK,EAAC,MAAM,WAAgB;gBACtC,8BAAC,mBAAQ,IAAC,KAAK,EAAC,MAAM,WAAgB,CAC5B;YACZ,yCAAM;YACL,OAAO,CAAC,SAAS,CAAC,CAAC,CAAC,CACnB,8BAAC,oBAAS,IACR,MAAM,QACN,KAAK,EAAC,OAAO,EACb,OAAO,EAAC,UAAU,EAClB,KAAK,EAAE,SAAS,EAChB,QAAQ,EAAE,KAAK,CAAC,EAAE,CAAC,YAAY,CAAC,KAAK,CAAC,MAAM,CAAC,KAAK,CAAC,IAElD,MAAM,CAAC,OAAO,CAAC,OAAO,CAAC,SAAS,EAAE,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,GAAG,EAAE,GAAG,CAAC,EAAE,EAAE,CAAC,CACvD,8BAAC,mBAAQ,IAAC,GAAG,EAAE,GAAG,EAAE,KAAK,EAAE,GAAG;YAE1B,mBAAmB;YACnB,GAAG,CAAC,IAAI,IAAI,gBAAgB,CAErB,CACZ,CAAC,CACQ,CACb,CAAC,CAAC,CAAC,IAAI;YAEP,eAAe,CAAC,CAAC,CAAC,CACjB,8BAAC,2BAAgB,IACf,OAAO,EACL,8BAAC,mBAAQ,IACP,OAAO,EAAE,eAAe,EACxB,QAAQ,EAAE,GAAG,EAAE,CAAC,kBAAkB,CAAC,GAAG,CAAC,EAAE,CAAC,CAAC,GAAG,CAAC,GAC/C,EAEJ,KAAK,EAAC,8EAA8E,GACpF,CACH,CAAC,CAAC,CAAC,CACF,8BAAC,qBAAU,+FAGE,CACd,CACa;QAChB,8BAAC,wBAAa;YACZ,8BAAC,iBAAM,IACL,OAAO,EAAC,WAAW,EACnB,KAAK,EAAC,WAAW,EACjB,OAAO,EAAE,GAAG,EAAE,CAAC,WAAW,EAAE,aAGrB;YACT,8BAAC,iBAAM,IACL,OAAO,EAAC,WAAW,EACnB,KAAK,EAAC,SAAS,EACf,IAAI,EAAC,QAAQ,EACb,OAAO,EAAE,KAAK,IAAI,EAAE;oBAClB,UAAU,CAAC,IAAI,CAAC,CAAA;oBAChB,QAAQ,CAAC,SAAS,CAAC,CAAA;oBACnB,IAAI;wBACF,MAAM,KAAK,CAAC,SAAS,CAAC;4BACpB,eAAe;4BACf,QAAQ;4BACR,WAAW;4BACX,SAAS;yBACV,CAAC,CAAA;wBACF,WAAW,EAAE,CAAA;qBACd;oBAAC,OAAO,CAAC,EAAE;wBACV,OAAO,CAAC,KAAK,CAAC,CAAC,CAAC,CAAA;wBAChB,QAAQ,CAAC,CAAC,CAAC,CAAA;wBACX,UAAU,CAAC,KAAK,CAAC,CAAA;qBAClB;gBACH,CAAC,aAGM,CACK,CACT,CACV,CAAA;AACH,CAAC;AArHD,+BAqHC"}

package/dist/LinearGenomeView/components/ImportForm.d.ts CHANGED Viewed

@@ -1,7 +1,7 @@
 /// <reference types="react" />
 import { LinearGenomeViewModel } from '..';
 type LGV = LinearGenomeViewModel;
-declare const ImportForm: ({ model }: {
+declare const _default: ({ model }: {
     model: LGV;
 }) => JSX.Element;
-export default ImportForm;
+export default _default;

package/dist/LinearGenomeView/components/ImportForm.js CHANGED Viewed

@@ -37,6 +37,7 @@ const Close_1 = __importDefault(require("@mui/icons-material/Close"));
 // locals
 const RefNameAutocomplete_1 = __importDefault(require("./RefNameAutocomplete"));
 const util_2 = require("./util");
+// lazies
 const SearchResultsDialog = (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('./SearchResultsDialog'))));
 const useStyles = (0, mui_1.makeStyles)()(theme => ({
     importFormContainer: {
@@ -49,7 +50,7 @@ const useStyles = (0, mui_1.makeStyles)()(theme => ({
         padding: theme.spacing(4),
     },
 }));
-const ImportForm = (0, mobx_react_1.observer)(({ model }) => {
+exports.default = (0, mobx_react_1.observer)(function ({ model }) {
     var _a;
     const { classes } = useStyles();
     const session = (0, util_1.getSession)(model);
@@ -62,14 +63,16 @@ const ImportForm = (0, mobx_react_1.observer)(({ model }) => {
     const assemblyError = assemblyNames.length
         ? assembly === null || assembly === void 0 ? void 0 : assembly.error
         : 'No configured assemblies';
-    const regions = (assembly === null || assembly === void 0 ? void 0 : assembly.regions) || [];
     const displayError = assemblyError || error;
     const [value, setValue] = (0, react_1.useState)('');
-    const r0 = (_a = regions[0]) === null || _a === void 0 ? void 0 : _a.refName;
-    // useEffect resets to an "initial state" of displaying first region from assembly
-    // after assembly change. needs to react to selectedAsm as well as r0 because changing
-    // assembly will run setValue('') and then r0 may not change if assembly names are the
-    // same across assemblies, but it still needs to be reset
+    const regions = assembly === null || assembly === void 0 ? void 0 : assembly.regions;
+    const assemblyLoaded = !!regions;
+    const r0 = regions ? (_a = regions[0]) === null || _a === void 0 ? void 0 : _a.refName : '';
+    // useEffect resets to an "initial state" of displaying first region from
+    // assembly after assembly change. needs to react to selectedAsm as well as
+    // r0 because changing assembly will run setValue('') and then r0 may not
+    // change if assembly names are the same across assemblies, but it still
+    // needs to be reset
     (0, react_1.useEffect)(() => {
         setValue(r0);
     }, [r0, selectedAsm]);
@@ -101,7 +104,7 @@ const ImportForm = (0, mobx_react_1.observer)(({ model }) => {
                 const [ref, rest] = (0, util_2.splitLast)(input, ':');
                 const allRefs = (assembly === null || assembly === void 0 ? void 0 : assembly.allRefNamesWithLowerCase) || [];
                 if (allRefs.includes(input) ||
-                    (allRefs.includes(ref) && !Number.isNaN(parseInt(rest, 10)))) {
+                    (allRefs.includes(ref) && !Number.isNaN(Number.parseInt(rest, 10)))) {
                     await model.navToLocString(input, selectedAsm);
                 }
                 else {
@@ -146,24 +149,18 @@ const ImportForm = (0, mobx_react_1.observer)(({ model }) => {
                 react_1.default.createElement(material_1.Grid, { container: true, spacing: 1, justifyContent: "center", alignItems: "center" },
                     react_1.default.createElement(material_1.Grid, { item: true },
                         react_1.default.createElement(material_1.FormControl, null,
-                            react_1.default.createElement(ui_1.AssemblySelector, { onChange: val => {
-                                    setSelectedAsm(val);
-                                    setValue('');
-                                }, localStorageKey: "lgv", session: session, selected: selectedAsm }))),
-                    react_1.default.createElement(material_1.Grid, { item: true }, selectedAsm ? (assemblyError ? (react_1.default.createElement(Close_1.default, { style: { color: 'red' } })) : value ? (react_1.default.createElement(material_1.FormControl, null,
+                            react_1.default.createElement(ui_1.AssemblySelector, { onChange: val => setSelectedAsm(val), localStorageKey: "lgv", session: session, selected: selectedAsm }))),
+                    react_1.default.createElement(material_1.Grid, { item: true }, selectedAsm ? (assemblyError ? (react_1.default.createElement(Close_1.default, { style: { color: 'red' } })) : assemblyLoaded ? (react_1.default.createElement(material_1.FormControl, null,
                         react_1.default.createElement(RefNameAutocomplete_1.default, { fetchResults: queryString => (0, util_2.fetchResults)({
                                 queryString,
                                 assembly,
                                 textSearchManager,
                                 rankSearchResults,
                                 searchScope,
-                            }), model: model, assemblyName: assemblyError ? undefined : selectedAsm, value: value,
-                            // note: minWidth 270 accommodates full width of helperText
-                            minWidth: 270, onChange: str => setValue(str), onSelect: val => setOption(val), TextFieldProps: {
+                            }), model: model, assemblyName: selectedAsm, value: value, minWidth: 270, onChange: str => setValue(str), onSelect: val => setOption(val), TextFieldProps: {
                                 variant: 'outlined',
                                 helperText: 'Enter sequence name, feature name, or location',
-                                style: { minWidth: '175px' },
-                            } }))) : (react_1.default.createElement(material_1.CircularProgress, { role: "progressbar", size: 20, disableShrink: true }))) : null),
+                            } }))) : (react_1.default.createElement(material_1.CircularProgress, { size: 20, disableShrink: true }))) : null),
                     react_1.default.createElement(material_1.Grid, { item: true },
                         react_1.default.createElement(material_1.FormControl, null,
                             react_1.default.createElement(material_1.Button, { type: "submit", disabled: !value, className: classes.button, variant: "contained", color: "primary" }, "Open")),
@@ -174,5 +171,4 @@ const ImportForm = (0, mobx_react_1.observer)(({ model }) => {
                                 }, variant: "contained", color: "secondary" }, "Show all regions in assembly")))))),
         isSearchDialogDisplayed ? (react_1.default.createElement(SearchResultsDialog, { model: model, optAssemblyName: selectedAsm, handleClose: () => model.setSearchResults(undefined, undefined) })) : null));
 });
-exports.default = ImportForm;
 //# sourceMappingURL=ImportForm.js.map

package/dist/LinearGenomeView/components/ImportForm.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- 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1	+ 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package/dist/LinearGenomeView/components/OverviewRubberband.d.ts CHANGED Viewed

@@ -2,10 +2,9 @@ import React from 'react';
 import { Base1DViewModel } from '@jbrowse/core/util/Base1DViewModel';
 import { LinearGenomeViewModel } from '..';
 type LGV = LinearGenomeViewModel;
-declare function OverviewRubberband({ model, overview, ControlComponent, }: {
+declare const _default: ({ model, overview, ControlComponent, }: {
     model: LGV;
     overview: Base1DViewModel;
-    ControlComponent?: React.ReactElement;
-}): JSX.Element;
-declare const _default: typeof OverviewRubberband;
+    ControlComponent?: React.ReactElement<any, string | React.JSXElementConstructor<any>> | undefined;
+}) => JSX.Element;
 export default _default;

package/dist/LinearGenomeView/components/OverviewRubberband.js CHANGED Viewed

@@ -47,7 +47,7 @@ const useStyles = (0, mui_1.makeStyles)()({
         zIndex: 10,
     },
 });
-const HoverTooltip = (0, mobx_react_1.observer)(({ model, open, guideX, overview, }) => {
+const HoverTooltip = (0, mobx_react_1.observer)(function ({ model, open, guideX, overview, }) {
     var _a;
     const { classes } = useStyles();
     const { cytobandOffset } = model;
@@ -58,11 +58,9 @@ const HoverTooltip = (0, mobx_react_1.observer)(({ model, open, guideX, overview
         px.coord < f.get('end') &&
         px.refName === assembly.getCanonicalRefName(f.get('refName')));
     return (react_1.default.createElement(material_1.Tooltip, { open: open, placement: "top", title: [(0, util_1.stringify)(px), cytoband === null || cytoband === void 0 ? void 0 : cytoband.get('name')].join(' '), arrow: true },
-        react_1.default.createElement("div", { className: classes.guide, style: {
-                left: guideX,
-            } })));
+        react_1.default.createElement("div", { className: classes.guide, style: { left: guideX } })));
 });
-function OverviewRubberband({ model, overview, ControlComponent = react_1.default.createElement("div", null), }) {
+exports.default = (0, mobx_react_1.observer)(function OverviewRubberband({ model, overview, ControlComponent = react_1.default.createElement("div", null), }) {
     const { cytobandOffset } = model;
     const [startX, setStartX] = (0, react_1.useState)();
     const [currentX, setCurrentX] = (0, react_1.useState)();
@@ -135,7 +133,7 @@ function OverviewRubberband({ model, overview, ControlComponent = react_1.defaul
     if (startX === undefined) {
         return (react_1.default.createElement("div", { style: { position: 'relative' } },
             guideX !== undefined ? (react_1.default.createElement(HoverTooltip, { model: model, open: !mouseDragging, overview: overview, guideX: guideX })) : null,
-            react_1.default.createElement("div", { className: classes.rubberbandControl, role: "presentation", ref: controlsRef, onMouseDown: mouseDown, onMouseOut: mouseOut, onMouseMove: mouseMove }, ControlComponent)));
+            react_1.default.createElement("div", { className: classes.rubberbandControl, ref: controlsRef, onMouseDown: mouseDown, onMouseOut: mouseOut, onMouseMove: mouseMove }, ControlComponent)));
     }
     let left = startX || 0;
     let width = 0;
@@ -149,14 +147,13 @@ function OverviewRubberband({ model, overview, ControlComponent = react_1.defaul
     if (startX) {
         leftBpOffset = overview.pxToBp(startX - cytobandOffset);
         rightBpOffset = overview.pxToBp(startX + width - cytobandOffset);
-        if (currentX && currentX < startX) {
+        if (currentX !== undefined && currentX < startX) {
             ;
             [leftBpOffset, rightBpOffset] = [rightBpOffset, leftBpOffset];
         }
     }
     return (react_1.default.createElement("div", { style: { position: 'relative' } },
-        leftBpOffset && rightBpOffset ? (react_1.default.createElement(RubberbandSpan_1.default, { leftBpOffset: leftBpOffset, rightBpOffset: rightBpOffset, width: width, left: left })) : null,
-        react_1.default.createElement("div", { "data-testid": "rubberband_controls", className: classes.rubberbandControl, role: "presentation", ref: controlsRef, onMouseDown: mouseDown, onMouseOut: mouseOut, onMouseMove: mouseMove }, ControlComponent)));
-}
-exports.default = (0, mobx_react_1.observer)(OverviewRubberband);
+        leftBpOffset && rightBpOffset ? (react_1.default.createElement(RubberbandSpan_1.default, { leftBpOffset: leftBpOffset, rightBpOffset: rightBpOffset, width: Math.abs(width), left: left })) : null,
+        react_1.default.createElement("div", { "data-testid": "rubberband_controls", className: classes.rubberbandControl, ref: controlsRef, onMouseDown: mouseDown, onMouseOut: mouseOut, onMouseMove: mouseMove }, ControlComponent)));
+});
 //# sourceMappingURL=OverviewRubberband.js.map

package/dist/LinearGenomeView/components/OverviewRubberband.js.map CHANGED Viewed

	@@ -1 +1 @@
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package/dist/LinearGenomeView/components/OverviewScalebar.d.ts CHANGED Viewed

@@ -1,17 +1,16 @@
 import React from 'react';
 import { Base1DViewModel } from '@jbrowse/core/util/Base1DViewModel';
 import { LinearGenomeViewModel } from '..';
-import Cytobands from './Cytobands';
 declare const Polygon: ({ model, overview, useOffset, }: {
     model: LGV;
     overview: Base1DViewModel;
     useOffset?: boolean | undefined;
 }) => JSX.Element | null;
 type LGV = LinearGenomeViewModel;
-declare function OverviewScalebar({ model, children, }: {
+declare const _default: ({ model, children, }: {
     model: LGV;
     children: React.ReactNode;
-}): JSX.Element;
-declare const _default: typeof OverviewScalebar;
+}) => JSX.Element;
 export default _default;
-export { Cytobands, Polygon };
+export { Polygon };
+export { default as Cytobands } from './Cytobands';

package/dist/LinearGenomeView/components/OverviewScalebar.js CHANGED Viewed

@@ -3,7 +3,7 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
     return (mod && mod.__esModule) ? mod : { "default": mod };
 };
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.Polygon = exports.Cytobands = void 0;
+exports.Cytobands = exports.Polygon = void 0;
 const react_1 = __importDefault(require("react"));
 const material_1 = require("@mui/material");
 const mui_1 = require("tss-react/mui");
@@ -17,7 +17,6 @@ const __1 = require("..");
 const util_2 = require("../util");
 const OverviewRubberband_1 = __importDefault(require("./OverviewRubberband"));
 const Cytobands_1 = __importDefault(require("./Cytobands"));
-exports.Cytobands = Cytobands_1.default;
 const util_3 = require("./util");
 const wholeSeqSpacer = 2;
 const useStyles = (0, mui_1.makeStyles)()(theme => ({
@@ -186,7 +185,7 @@ const Scalebar = (0, mobx_react_1.observer)(function ({ model, scale, overview,
                 } })) : (react_1.default.createElement(OverviewBox, { scale: scale, block: block, model: model, overview: overview, key: `${JSON.stringify(block)}-${idx}` }));
         })));
 });
-function OverviewScalebar({ model, children, }) {
+exports.default = (0, mobx_react_1.observer)(function OverviewScalebar({ model, children, }) {
     const { classes } = useStyles();
     const { totalBp, width, cytobandOffset, displayedRegions } = model;
     const overview = Base1DViewModel_1.default.create({
@@ -204,6 +203,7 @@ function OverviewScalebar({ model, children, }) {
             react_1.default.createElement("svg", { height: __1.HEADER_BAR_HEIGHT, className: classes.overviewSvg },
                 react_1.default.createElement(Polygon, { model: model, overview: overview })),
             children)));
-}
-exports.default = (0, mobx_react_1.observer)(OverviewScalebar);
+});
+var Cytobands_2 = require("./Cytobands");
+Object.defineProperty(exports, "Cytobands", { enumerable: true, get: function () { return __importDefault(Cytobands_2).default; } });
 //# sourceMappingURL=OverviewScalebar.js.map