@jbrowse/plugin-linear-genome-view 2.3.4 → 2.4.0

package/dist/LinearBasicDisplay/model.d.ts

@@ -12,7 +12,7 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
     type: import("mobx-state-tree").ISimpleType<string>;
     rpcDriverName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
 } & {
-    height: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<number>, [undefined]>;
+    heightPreConfig: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
     blockState: import("mobx-state-tree").IMapType<import("mobx-state-tree").IModelType<{
         key: import("mobx-state-tree").ISimpleType<string>;
         region: import("mobx-state-tree").IModelType<{
@@ -32,29 +32,25 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
         isRightEndOfDisplayedRegion: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
     }, {
         renderInProgress: AbortController | undefined;
-        filled: boolean;
+        filled: boolean; /**
+         * #property
+         */
         reactElement: import("react").ReactElement<any, string | import("react").JSXElementConstructor<any>> | undefined;
         features: Map<string, import("@jbrowse/core/util").Feature> | undefined;
         layout: any;
         status: string;
         error: unknown;
-        message: string | undefined; /**
-         * #getter
-         */
+        message: string | undefined;
         maxHeightReached: boolean;
         ReactComponent: ({ model, }: {
             model: any;
         }) => any;
         renderProps: any;
     } & {
-        doReload(): void; /**
-         * #getter
-         */
+        doReload(): void;
         afterAttach(): void;
         setStatus(message: string): void;
-        setLoading(abortController: AbortController): void; /**
-         * #action
-         */
+        setLoading(abortController: AbortController): void;
         setMessage(messageText: string): void;
         setRendered(props: {
             reactElement: import("react").ReactElement<any, string | import("react").JSXElementConstructor<any>>;
@@ -162,6 +158,7 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
     estimatedRegionStatsP: Promise<import("@jbrowse/core/data_adapters/BaseAdapter").Stats> | undefined;
     estimatedRegionStats: import("@jbrowse/core/data_adapters/BaseAdapter").Stats | undefined;
 } & {
+    readonly height: any;
     readonly blockType: "dynamicBlocks" | "staticBlocks";
     readonly blockDefinitions: import("@jbrowse/core/util/blockTypes").BlockSet;
 } & {
@@ -191,7 +188,7 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
     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): number;
+    setHeight(displayHeight: number): any;
     resizeHeight(distance: number): number;
     setScrollTop(scrollTop: number): void;
     updateStatsLimit(stats: import("@jbrowse/core/data_adapters/BaseAdapter").Stats): void;
@@ -224,6 +221,7 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
 } & {
     renderSvg(opts: import("../LinearGenomeView").ExportSvgOptions & {
         overrideHeight: number;
+        theme: import("@mui/material").ThemeOptions;
     }): Promise<JSX.Element>;
 } & {
     /**
@@ -287,11 +285,71 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
      * #method
      */
     trackMenuItems(): MenuItem[];
-}, import("mobx-state-tree")._NotCustomized, {
+}, {
+    type: string;
+} & Partial<import("mobx-state-tree/dist/internal").ExtractCFromProps<{
+    id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
+    type: import("mobx-state-tree").ISimpleType<string>;
+    rpcDriverName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
+} & {
+    heightPreConfig: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
+    blockState: import("mobx-state-tree").IMapType<import("mobx-state-tree").IModelType<{
+        key: import("mobx-state-tree").ISimpleType<string>;
+        region: import("mobx-state-tree").IModelType<{
+            refName: import("mobx-state-tree").ISimpleType<string>; /**
+             * #property
+             */
+            start: import("mobx-state-tree").ISimpleType<number>;
+            end: import("mobx-state-tree").ISimpleType<number>;
+            reversed: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
+        } & {
+            assemblyName: import("mobx-state-tree").ISimpleType<string>;
+        }, {
+            setRefName(newRefName: string): void;
+        }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
+        reloadFlag: import("mobx-state-tree").IType<number | undefined, number, number>;
+        isLeftEndOfDisplayedRegion: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
+        isRightEndOfDisplayedRegion: import("mobx-state-tree").IType<boolean | undefined, boolean, boolean>;
+    }, {
+        renderInProgress: AbortController | undefined;
+        filled: boolean; /**
+         * #property
+         */
+        reactElement: import("react").ReactElement<any, string | import("react").JSXElementConstructor<any>> | undefined;
+        features: Map<string, import("@jbrowse/core/util").Feature> | undefined;
+        layout: any;
+        status: string;
+        error: unknown;
+        message: string | undefined;
+        maxHeightReached: boolean;
+        ReactComponent: ({ model, }: {
+            model: any;
+        }) => any;
+        renderProps: any;
+    } & {
+        doReload(): void;
+        afterAttach(): void;
+        setStatus(message: string): void;
+        setLoading(abortController: AbortController): void;
+        setMessage(messageText: string): void;
+        setRendered(props: {
+            reactElement: import("react").ReactElement<any, string | import("react").JSXElementConstructor<any>>;
+            features: Map<string, import("@jbrowse/core/util").Feature>;
+            layout: any;
+            maxHeightReached: boolean;
+            renderProps: any;
+        } | undefined): void;
+        setError(error: unknown): void;
+        reload(): void;
+        beforeDestroy(): void;
+    }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
+    userBpPerPxLimit: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
+    userByteSizeLimit: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<number>>;
+}>> & import("mobx-state-tree/dist/internal").NonEmptyObject & import("mobx-state-tree")._NotCustomized, {
     type: string;
-    height: number;
     id: string;
     rpcDriverName: string | undefined;
+    heightPreConfig: number | undefined;
     userBpPerPxLimit: number | undefined;
     userByteSizeLimit: number | undefined;
 } & import("mobx-state-tree")._NotCustomized>;

package/dist/LinearGenomeView/components/CenterLine.js

@@ -26,13 +26,13 @@ Object.defineProperty(exports, "__esModule", { value: true });
 const react_1 = __importStar(require("react"));
 const mui_1 = require("tss-react/mui");
 const mobx_react_1 = require("mobx-react");
-const useStyles = (0, mui_1.makeStyles)()(() => ({
+const useStyles = (0, mui_1.makeStyles)()(theme => ({
     centerLineContainer: {
         background: 'transparent',
         height: '100%',
         zIndex: 5,
         position: 'absolute',
-        border: '1px black dashed',
+        border: `1px ${theme.palette.action.active} dashed`,
         borderTop: 'none',
         borderBottom: 'none',
         pointerEvents: 'none',

package/dist/LinearGenomeView/components/CenterLine.js.map

@@ -1 +1 @@
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+{"version":3,"file":"CenterLine.js","sourceRoot":"","sources":["../../../src/LinearGenomeView/components/CenterLine.tsx"],"names":[],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;AAAA,+CAAqC;AACrC,uCAA0C;AAC1C,2CAAqC;AAKrC,MAAM,SAAS,GAAG,IAAA,gBAAU,GAAE,CAAC,KAAK,CAAC,EAAE,CAAC,CAAC;IACvC,mBAAmB,EAAE;QACnB,UAAU,EAAE,aAAa;QACzB,MAAM,EAAE,MAAM;QACd,MAAM,EAAE,CAAC;QACT,QAAQ,EAAE,UAAU;QACpB,MAAM,EAAE,OAAO,KAAK,CAAC,OAAO,CAAC,MAAM,CAAC,MAAM,SAAS;QACnD,SAAS,EAAE,MAAM;QACjB,YAAY,EAAE,MAAM;QACpB,aAAa,EAAE,MAAM;KACtB;IACD,cAAc,EAAE;QACd,QAAQ,EAAE,UAAU;QACpB,aAAa,EAAE,MAAM;QACrB,UAAU,EAAE,QAAQ;QACpB,UAAU,EAAE,MAAM;KACnB;CACF,CAAC,CAAC,CAAA;AAEH,SAAS,UAAU,CAAC,EAAE,KAAK,EAAkB;IAC3C,MAAM,EAAE,OAAO,EAAE,cAAc,EAAE,YAAY,EAAE,MAAM,EAAE,KAAK,EAAE,GAAG,KAAK,CAAA;IACtE,MAAM,GAAG,GAAG,IAAA,cAAM,EAAiB,IAAI,CAAC,CAAA;IACxC,MAAM,EAAE,OAAO,EAAE,GAAG,SAAS,EAAE,CAAA;IAC/B,MAAM,gBAAgB,GAAG,KAAK,GAAG,CAAC,CAAA;IAElC,OAAO,MAAM,CAAC,MAAM,CAAC,CAAC,CAAC,CACrB,sDACc,sBAAsB,EAClC,SAAS,EAAE,OAAO,CAAC,mBAAmB,EACtC,IAAI,EAAC,cAAc,EACnB,GAAG,EAAE,GAAG,EACR,KAAK,EAAE;YACL,IAAI,EAAE,GAAG,gBAAgB,IAAI;YAC7B,KAAK,EAAE,IAAI,CAAC,GAAG,CAAC,CAAC,GAAG,OAAO,EAAE,CAAC,CAAC;SAChC,IAEA,cAAc,IAAI,CACjB,sDAGc,iBAAiB,EAC7B,SAAS,EAAE,OAAO,CAAC,cAAc,EACjC,IAAI,EAAC,cAAc,EACnB,KAAK,EAAE;YACL,IAAI,EAAE,IAAI,CAAC,GAAG,CAAC,CAAC,GAAG,OAAO,EAAE,CAAC,CAAC,GAAG,CAAC;YAClC,GAAG,EAAE,YAAY;SAClB;QAGA,cAAc,CAAC,OAAO;;QAAG,GAAG;QAC5B,IAAI,CAAC,GAAG,CAAC,IAAI,CAAC,KAAK,CAAC,cAAc,CAAC,MAAM,CAAC,GAAG,CAAC,EAAE,CAAC,CAAC,CAC/C,CACP,CACG,CACP,CAAC,CAAC,CAAC,IAAI,CAAA;AACV,CAAC;AAED,kBAAe,IAAA,qBAAQ,EAAC,UAAU,CAAC,CAAA"}

package/dist/LinearGenomeView/components/Cytobands.d.ts

@@ -0,0 +1,118 @@
+/// <reference types="react" />
+import { Base1DViewModel } from '@jbrowse/core/util/Base1DViewModel';
+import { ContentBlock } from '@jbrowse/core/util/blockTypes';
+import { Assembly } from '@jbrowse/core/assemblyManager/assembly';
+declare const _default: ({ overview, block, assembly, }: {
+    overview: Base1DViewModel;
+    assembly?: ({
+        configuration: any;
+    } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
+        error: unknown;
+        loaded: boolean;
+        loadingP: Promise<void> | undefined;
+        volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+        refNameAliases: {
+            [x: string]: string;
+        } | undefined;
+        lowerCaseRefNameAliases: {
+            [x: string]: string;
+        } | undefined;
+        cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+    } & {
+        readonly initialized: boolean;
+        readonly name: string;
+        readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+        readonly aliases: string[];
+        readonly displayName: string | undefined;
+        hasName(name: string): boolean;
+        readonly allAliases: string[];
+        readonly allRefNames: string[] | undefined;
+        readonly lowerCaseRefNames: string[] | undefined;
+        readonly allRefNamesWithLowerCase: string[] | undefined;
+        readonly rpcManager: any;
+        readonly refNameColors: string[];
+    } & {
+        readonly refNames: string[] | undefined;
+    } & {
+        getCanonicalRefName(refName: string): string;
+        getRefNameColor(refName: string): string | undefined;
+        isValidRefName(refName: string): boolean;
+    } & {
+        setLoaded({ adapterRegionsWithAssembly, refNameAliases, lowerCaseRefNameAliases, cytobands, }: import("@jbrowse/core/assemblyManager/assembly").Loading): void;
+        setError(e: unknown): void;
+        setRegions(regions: import("@jbrowse/core/util").Region[]): void;
+        setRefNameAliases(aliases: {
+            [x: string]: string;
+        }, lcAliases: {
+            [x: string]: string;
+        }): void;
+        setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
+        setLoadingP(p?: Promise<void> | undefined): void;
+        load(): Promise<void>;
+        loadPre(): Promise<void>;
+    } & {
+        getAdapterMapEntry(adapterConf: unknown, options: import("@jbrowse/core/assemblyManager/assembly").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
+        getRefNameMapForAdapter(adapterConf: unknown, opts: import("@jbrowse/core/assemblyManager/assembly").BaseOptions): Promise<{
+            [x: string]: string;
+        }>;
+        getReverseRefNameMapForAdapter(adapterConf: unknown, opts: import("@jbrowse/core/assemblyManager/assembly").BaseOptions): Promise<{
+            [x: string]: string;
+        }>;
+    } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
+        configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
+    }, {
+        error: unknown;
+        loaded: boolean;
+        loadingP: Promise<void> | undefined;
+        volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+        refNameAliases: {
+            [x: string]: string;
+        } | undefined;
+        lowerCaseRefNameAliases: {
+            [x: string]: string;
+        } | undefined;
+        cytobands: import("@jbrowse/core/util").Feature[] | undefined;
+    } & {
+        readonly initialized: boolean;
+        readonly name: string;
+        readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
+        readonly aliases: string[];
+        readonly displayName: string | undefined;
+        hasName(name: string): boolean;
+        readonly allAliases: string[];
+        readonly allRefNames: string[] | undefined;
+        readonly lowerCaseRefNames: string[] | undefined;
+        readonly allRefNamesWithLowerCase: string[] | undefined;
+        readonly rpcManager: any;
+        readonly refNameColors: string[];
+    } & {
+        readonly refNames: string[] | undefined;
+    } & {
+        getCanonicalRefName(refName: string): string;
+        getRefNameColor(refName: string): string | undefined;
+        isValidRefName(refName: string): boolean;
+    } & {
+        setLoaded({ adapterRegionsWithAssembly, refNameAliases, lowerCaseRefNameAliases, cytobands, }: import("@jbrowse/core/assemblyManager/assembly").Loading): void;
+        setError(e: unknown): void;
+        setRegions(regions: import("@jbrowse/core/util").Region[]): void;
+        setRefNameAliases(aliases: {
+            [x: string]: string;
+        }, lcAliases: {
+            [x: string]: string;
+        }): void;
+        setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
+        setLoadingP(p?: Promise<void> | undefined): void;
+        load(): Promise<void>;
+        loadPre(): Promise<void>;
+    } & {
+        getAdapterMapEntry(adapterConf: unknown, options: import("@jbrowse/core/assemblyManager/assembly").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
+        getRefNameMapForAdapter(adapterConf: unknown, opts: import("@jbrowse/core/assemblyManager/assembly").BaseOptions): Promise<{
+            [x: string]: string;
+        }>;
+        getReverseRefNameMapForAdapter(adapterConf: unknown, opts: import("@jbrowse/core/assemblyManager/assembly").BaseOptions): Promise<{
+            [x: string]: string;
+        }>;
+    }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>) | undefined;
+    block: ContentBlock;
+}) => JSX.Element;
+export default _default;

package/dist/LinearGenomeView/components/Cytobands.js

@@ -0,0 +1,92 @@
+"use strict";
+var __importDefault = (this && this.__importDefault) || function (mod) {
+    return (mod && mod.__esModule) ? mod : { "default": mod };
+};
+Object.defineProperty(exports, "__esModule", { value: true });
+const react_1 = __importDefault(require("react"));
+const mobx_react_1 = require("mobx-react");
+// locals
+const __1 = require("..");
+const util_1 = require("./util");
+// rounded rect from https://stackoverflow.com/a/45889603/2129219
+// prettier-ignore
+function rightRoundedRect(x, y, width, height, radius) {
+    return "M" + x + "," + y
+        + "h" + (width - radius)
+        + "a" + radius + "," + radius + " 0 0 1 " + radius + "," + radius
+        + "v" + (height - 2 * radius)
+        + "a" + radius + "," + radius + " 0 0 1 " + -radius + "," + radius
+        + "h" + (radius - width)
+        + "z";
+}
+// prettier-ignore
+function leftRoundedRect(x, y, width, height, radius) {
+    return "M" + (x + radius) + "," + y
+        + "h" + (width - radius)
+        + "v" + height
+        + "h" + (radius - width)
+        + "a" + radius + "," + radius + " 0 0 1 " + (-radius) + "," + (-radius)
+        + "v" + (2 * radius - height)
+        + "a" + radius + "," + radius + " 0 0 1 " + radius + "," + (-radius)
+        + "z";
+}
+const colorMap = {
+    gneg: 'rgb(227,227,227)',
+    gpos25: 'rgb(142,142,142)',
+    gpos50: 'rgb(85,85,85)',
+    gpos100: 'rgb(0,0,0)',
+    gpos75: 'rgb(57,57,57)',
+    gvar: 'rgb(0,0,0)',
+    stalk: 'rgb(127,127,127)',
+    acen: '#800',
+};
+exports.default = (0, mobx_react_1.observer)(function Cytobands({ overview, block, assembly, }) {
+    const { offsetPx, reversed } = block;
+    const cytobands = (0, util_1.getCytobands)(assembly, block.refName);
+    const coords = cytobands.map(f => {
+        const { refName, start, end, type } = f;
+        return [
+            overview.bpToPx({
+                refName,
+                coord: start,
+            }),
+            overview.bpToPx({
+                refName,
+                coord: end,
+            }),
+            type,
+        ];
+    });
+    const arr = cytobands || [];
+    const lcap = reversed ? arr.length - 1 : 0;
+    const rcap = reversed ? 0 : arr.length - 1;
+    let firstCent = true;
+    return (react_1.default.createElement("g", { transform: `translate(-${offsetPx})` }, coords.map(([start, end, type], index) => {
+        const key = `${start}-${end}-${type}`;
+        if (type === 'acen' && firstCent) {
+            firstCent = false;
+            return (react_1.default.createElement("polygon", { key: key, points: [
+                    [start, 0],
+                    [end, __1.HEADER_OVERVIEW_HEIGHT / 2],
+                    [start, __1.HEADER_OVERVIEW_HEIGHT],
+                ].toString(), fill: colorMap[type] }));
+        }
+        if (type === 'acen' && !firstCent) {
+            return (react_1.default.createElement("polygon", { key: key, points: [
+                    [start, __1.HEADER_OVERVIEW_HEIGHT / 2],
+                    [end, 0],
+                    [end, __1.HEADER_OVERVIEW_HEIGHT],
+                ].toString(), fill: colorMap[type] }));
+        }
+        if (lcap === index) {
+            return (react_1.default.createElement("path", { key: key, d: leftRoundedRect(Math.min(start, end), 0, Math.abs(end - start), __1.HEADER_OVERVIEW_HEIGHT, 8), fill: colorMap[type] }));
+        }
+        else if (rcap === index) {
+            return (react_1.default.createElement("path", { key: key, d: rightRoundedRect(Math.min(start, end), 0, Math.abs(end - start) - 2, __1.HEADER_OVERVIEW_HEIGHT, 8), fill: colorMap[type] }));
+        }
+        else {
+            return (react_1.default.createElement("rect", { key: key, x: Math.min(start, end), y: 0, width: Math.abs(end - start), height: __1.HEADER_OVERVIEW_HEIGHT, fill: colorMap[type] }));
+        }
+    })));
+});
+//# sourceMappingURL=Cytobands.js.map

package/dist/LinearGenomeView/components/Cytobands.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"Cytobands.js","sourceRoot":"","sources":["../../../src/LinearGenomeView/components/Cytobands.tsx"],"names":[],"mappings":";;;;;AAAA,kDAAyB;AACzB,2CAAqC;AAOrC,SAAS;AACT,0BAA2C;AAC3C,iCAAqC;AAErC,iEAAiE;AACjE,kBAAkB;AAClB,SAAS,gBAAgB,CAAC,CAAS,EAAE,CAAS,EAAE,KAAa,EAAE,MAAc,EAAE,MAAc;IAC3F,OAAO,GAAG,GAAG,CAAC,GAAG,GAAG,GAAG,CAAC;UACjB,GAAG,GAAG,CAAC,KAAK,GAAG,MAAM,CAAC;UACtB,GAAG,GAAG,MAAM,GAAG,GAAG,GAAG,MAAM,GAAG,SAAS,GAAG,MAAM,GAAG,GAAG,GAAG,MAAM;UAC/D,GAAG,GAAG,CAAC,MAAM,GAAG,CAAC,GAAG,MAAM,CAAC;UAC3B,GAAG,GAAG,MAAM,GAAG,GAAG,GAAG,MAAM,GAAG,SAAS,GAAG,CAAC,MAAM,GAAG,GAAG,GAAG,MAAM;UAChE,GAAG,GAAG,CAAC,MAAM,GAAG,KAAK,CAAC;UACtB,GAAG,CAAC;AACb,CAAC;AAED,kBAAkB;AAClB,SAAS,eAAe,CAAC,CAAS,EAAE,CAAS,EAAE,KAAa,EAAE,MAAc,EAAE,MAAc;IAC1F,OAAO,GAAG,GAAG,CAAC,CAAC,GAAG,MAAM,CAAC,GAAG,GAAG,GAAG,CAAC;UAC5B,GAAG,GAAG,CAAC,KAAK,GAAG,MAAM,CAAC;UACtB,GAAG,GAAG,MAAM;UACZ,GAAG,GAAG,CAAC,MAAM,GAAG,KAAK,CAAC;UACtB,GAAG,GAAG,MAAM,GAAG,GAAG,GAAG,MAAM,GAAG,SAAS,GAAG,CAAC,CAAC,MAAM,CAAC,GAAG,GAAG,GAAG,CAAC,CAAC,MAAM,CAAC;UACrE,GAAG,GAAG,CAAC,CAAC,GAAG,MAAM,GAAG,MAAM,CAAC;UAC3B,GAAG,GAAG,MAAM,GAAG,GAAG,GAAG,MAAM,GAAG,SAAS,GAAG,MAAM,GAAG,GAAG,GAAG,CAAC,CAAC,MAAM,CAAC;UAClE,GAAG,CAAC;AACb,CAAC;AAED,MAAM,QAAQ,GAA0C;IACtD,IAAI,EAAE,kBAAkB;IACxB,MAAM,EAAE,kBAAkB;IAC1B,MAAM,EAAE,eAAe;IACvB,OAAO,EAAE,YAAY;IACrB,MAAM,EAAE,eAAe;IACvB,IAAI,EAAE,YAAY;IAClB,KAAK,EAAE,kBAAkB;IACzB,IAAI,EAAE,MAAM;CACb,CAAA;AAED,kBAAe,IAAA,qBAAQ,EAAC,SAAS,SAAS,CAAC,EACzC,QAAQ,EACR,KAAK,EACL,QAAQ,GAKT;IACC,MAAM,EAAE,QAAQ,EAAE,QAAQ,EAAE,GAAG,KAAK,CAAA;IACpC,MAAM,SAAS,GAAG,IAAA,mBAAY,EAAC,QAAQ,EAAE,KAAK,CAAC,OAAO,CAAC,CAAA;IACvD,MAAM,MAAM,GAAG,SAAS,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE;QAC/B,MAAM,EAAE,OAAO,EAAE,KAAK,EAAE,GAAG,EAAE,IAAI,EAAE,GAAG,CAAC,CAAA;QACvC,OAAO;YACL,QAAQ,CAAC,MAAM,CAAC;gBACd,OAAO;gBACP,KAAK,EAAE,KAAK;aACb,CAAC;YACF,QAAQ,CAAC,MAAM,CAAC;gBACd,OAAO;gBACP,KAAK,EAAE,GAAG;aACX,CAAC;YACF,IAAI;SACL,CAAA;IACH,CAAC,CAAC,CAAA;IAEF,MAAM,GAAG,GAAG,SAAS,IAAI,EAAE,CAAA;IAC3B,MAAM,IAAI,GAAG,QAAQ,CAAC,CAAC,CAAC,GAAG,CAAC,MAAM,GAAG,CAAC,CAAC,CAAC,CAAC,CAAC,CAAA;IAC1C,MAAM,IAAI,GAAG,QAAQ,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,GAAG,CAAC,MAAM,GAAG,CAAC,CAAA;IAE1C,IAAI,SAAS,GAAG,IAAI,CAAA;IACpB,OAAO,CACL,qCAAG,SAAS,EAAE,cAAc,QAAQ,GAAG,IACpC,MAAM,CAAC,GAAG,CAAC,CAAC,CAAC,KAAK,EAAE,GAAG,EAAE,IAAI,CAAC,EAAE,KAAK,EAAE,EAAE;QACxC,MAAM,GAAG,GAAG,GAAG,KAAK,IAAI,GAAG,IAAI,IAAI,EAAE,CAAA;QACrC,IAAI,IAAI,KAAK,MAAM,IAAI,SAAS,EAAE;YAChC,SAAS,GAAG,KAAK,CAAA;YACjB,OAAO,CACL,2CACE,GAAG,EAAE,GAAG,EACR,MAAM,EAAE;oBACN,CAAC,KAAK,EAAE,CAAC,CAAC;oBACV,CAAC,GAAG,EAAE,0BAAsB,GAAG,CAAC,CAAC;oBACjC,CAAC,KAAK,EAAE,0BAAsB,CAAC;iBAChC,CAAC,QAAQ,EAAE,EACZ,IAAI,EAAE,QAAQ,CAAC,IAAI,CAAC,GACpB,CACH,CAAA;SACF;QACD,IAAI,IAAI,KAAK,MAAM,IAAI,CAAC,SAAS,EAAE;YACjC,OAAO,CACL,2CACE,GAAG,EAAE,GAAG,EACR,MAAM,EAAE;oBACN,CAAC,KAAK,EAAE,0BAAsB,GAAG,CAAC,CAAC;oBACnC,CAAC,GAAG,EAAE,CAAC,CAAC;oBACR,CAAC,GAAG,EAAE,0BAAsB,CAAC;iBAC9B,CAAC,QAAQ,EAAE,EACZ,IAAI,EAAE,QAAQ,CAAC,IAAI,CAAC,GACpB,CACH,CAAA;SACF;QAED,IAAI,IAAI,KAAK,KAAK,EAAE;YAClB,OAAO,CACL,wCACE,GAAG,EAAE,GAAG,EACR,CAAC,EAAE,eAAe,CAChB,IAAI,CAAC,GAAG,CAAC,KAAK,EAAE,GAAG,CAAC,EACpB,CAAC,EACD,IAAI,CAAC,GAAG,CAAC,GAAG,GAAG,KAAK,CAAC,EACrB,0BAAsB,EACtB,CAAC,CACF,EACD,IAAI,EAAE,QAAQ,CAAC,IAAI,CAAC,GACpB,CACH,CAAA;SACF;aAAM,IAAI,IAAI,KAAK,KAAK,EAAE;YACzB,OAAO,CACL,wCACE,GAAG,EAAE,GAAG,EACR,CAAC,EAAE,gBAAgB,CACjB,IAAI,CAAC,GAAG,CAAC,KAAK,EAAE,GAAG,CAAC,EACpB,CAAC,EACD,IAAI,CAAC,GAAG,CAAC,GAAG,GAAG,KAAK,CAAC,GAAG,CAAC,EACzB,0BAAsB,EACtB,CAAC,CACF,EACD,IAAI,EAAE,QAAQ,CAAC,IAAI,CAAC,GACpB,CACH,CAAA;SACF;aAAM;YACL,OAAO,CACL,wCACE,GAAG,EAAE,GAAG,EACR,CAAC,EAAE,IAAI,CAAC,GAAG,CAAC,KAAK,EAAE,GAAG,CAAC,EACvB,CAAC,EAAE,CAAC,EACJ,KAAK,EAAE,IAAI,CAAC,GAAG,CAAC,GAAG,GAAG,KAAK,CAAC,EAC5B,MAAM,EAAE,0BAAsB,EAC9B,IAAI,EAAE,QAAQ,CAAC,IAAI,CAAC,GACpB,CACH,CAAA;SACF;IACH,CAAC,CAAC,CACA,CACL,CAAA;AACH,CAAC,CAAC,CAAA"}

package/dist/LinearGenomeView/components/ExportSvgDialog.d.ts

@@ -2,7 +2,7 @@
 import { ExportSvgOptions } from '..';
 export default function ExportSvgDlg({ model, handleClose, }: {
     model: {
-        exportSvg(opts: ExportSvgOptions): void;
+        exportSvg(opts: ExportSvgOptions): Promise<void>;
     };
     handleClose: () => void;
 }): JSX.Element;

package/dist/LinearGenomeView/components/ExportSvgDialog.js

@@ -26,22 +26,38 @@ Object.defineProperty(exports, "__esModule", { value: true });
 const react_1 = __importStar(require("react"));
 const material_1 = require("@mui/material");
 const ui_1 = require("@jbrowse/core/ui");
+const util_1 = require("@jbrowse/core/util");
 function LoadingMessage() {
     return (react_1.default.createElement("div", null,
         react_1.default.createElement(material_1.CircularProgress, { size: 20, style: { marginRight: 20 } }),
         react_1.default.createElement(material_1.Typography, { display: "inline" }, "Creating SVG")));
 }
+function useSvgLocal(key, val) {
+    return (0, util_1.useLocalStorage)('svg-' + key, val);
+}
 function ExportSvgDlg({ model, handleClose, }) {
-    // @ts-ignore
+    const session = (0, util_1.getSession)(model);
     const offscreenCanvas = typeof OffscreenCanvas !== 'undefined';
     const [rasterizeLayers, setRasterizeLayers] = (0, react_1.useState)(offscreenCanvas);
     const [loading, setLoading] = (0, react_1.useState)(false);
-    const [filename, setFilename] = (0, react_1.useState)('jbrowse.svg');
     const [error, setError] = (0, react_1.useState)();
+    const [filename, setFilename] = useSvgLocal('file', 'jbrowse.svg');
+    const [trackLabels, setTrackLabels] = useSvgLocal('tracklabels', 'offset');
+    const [themeName, setThemeName] = useSvgLocal('theme', session.themeName || 'default');
     return (react_1.default.createElement(ui_1.Dialog, { open: true, onClose: handleClose, title: "Export SVG" },
         react_1.default.createElement(material_1.DialogContent, null,
             error ? (react_1.default.createElement(ui_1.ErrorMessage, { error: error })) : loading ? (react_1.default.createElement(LoadingMessage, null)) : null,
             react_1.default.createElement(material_1.TextField, { helperText: "filename", value: filename, onChange: event => setFilename(event.target.value) }),
+            react_1.default.createElement("br", null),
+            react_1.default.createElement(material_1.TextField, { select: true, label: "Track label positioning", variant: "outlined", style: { width: 150 }, value: trackLabels, onChange: event => setTrackLabels(event.target.value) },
+                react_1.default.createElement(material_1.MenuItem, { value: "offset" }, "Offset"),
+                react_1.default.createElement(material_1.MenuItem, { value: "overlay" }, "Overlay"),
+                react_1.default.createElement(material_1.MenuItem, { value: "left" }, "Left"),
+                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
+            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,
             react_1.default.createElement(material_1.Button, { variant: "contained", color: "secondary", onClick: () => handleClose() }, "Cancel"),
@@ -49,7 +65,12 @@ function ExportSvgDlg({ model, handleClose, }) {
                     setLoading(true);
                     setError(undefined);
                     try {
-                        await model.exportSvg({ rasterizeLayers, filename });
+                        await model.exportSvg({
+                            rasterizeLayers,
+                            filename,
+                            trackLabels,
+                            themeName,
+                        });
                         handleClose();
                     }
                     catch (e) {

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

@@ -1 +1 @@
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+{"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,aAAa;YACb,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/Gridlines.js

@@ -30,7 +30,7 @@ const useStyles = (0, mui_1.makeStyles)()(theme => ({
         width: 1,
     },
     majorTick: {
-        background: theme.palette.text.secondary,
+        background: theme.palette.action.disabled,
     },
     minorTick: {
         background: theme.palette.divider,

package/dist/LinearGenomeView/components/Gridlines.js.map

@@ -1 +1 @@
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+{"version":3,"file":"Gridlines.js","sourceRoot":"","sources":["../../../src/LinearGenomeView/components/Gridlines.tsx"],"names":[],"mappings":";;;;;AAAA,kDAAyB;AACzB,8DAIsC;AACtC,uCAA0C;AAC1C,2CAAqC;AAErC,oEAIiD;AAEjD,kCAAmC;AAInC,MAAM,SAAS,GAAG,IAAA,gBAAU,GAAE,CAAC,KAAK,CAAC,EAAE,CAAC,CAAC;IACvC,2BAA2B,EAAE;QAC3B,QAAQ,EAAE,UAAU;QACpB,MAAM,EAAE,MAAM;QACd,KAAK,EAAE,MAAM;QACb,MAAM,EAAE,CAAC;QACT,aAAa,EAAE,MAAM;KACtB;IACD,uBAAuB,EAAE;QACvB,QAAQ,EAAE,UAAU;QACpB,MAAM,EAAE,MAAM;QACd,MAAM,EAAE,CAAC;QACT,aAAa,EAAE,MAAM;QACrB,OAAO,EAAE,MAAM;KAChB;IACD,IAAI,EAAE;QACJ,QAAQ,EAAE,UAAU;QACpB,MAAM,EAAE,MAAM;QACd,KAAK,EAAE,CAAC;KACT;IACD,SAAS,EAAE;QACT,UAAU,EAAE,KAAK,CAAC,OAAO,CAAC,MAAM,CAAC,QAAQ;KAC1C;IACD,SAAS,EAAE;QACT,UAAU,EAAE,KAAK,CAAC,OAAO,CAAC,OAAO;KAClC;CACF,CAAC,CAAC,CAAA;AACH,MAAM,sBAAsB,GAAG,IAAA,qBAAQ,EAAC,CAAC,EAAE,KAAK,EAAkB,EAAE,EAAE;IACpE,MAAM,EAAE,OAAO,EAAE,EAAE,EAAE,GAAG,SAAS,EAAE,CAAA;IACnC,OAAO,CACL,8DACG,KAAK,CAAC,YAAY,CAAC,GAAG,CAAC,CAAC,KAAK,EAAE,KAAK,EAAE,EAAE;QACvC,IAAI,KAAK,YAAY,yBAAY,EAAE;YACjC,MAAM,KAAK,GAAG,IAAA,gBAAS,EAAC,KAAK,CAAC,KAAK,EAAE,KAAK,CAAC,GAAG,EAAE,KAAK,CAAC,OAAO,CAAC,CAAA;YAC9D,OAAO,CACL,8BAAC,oBAAqB,IAAC,GAAG,EAAE,GAAG,KAAK,CAAC,GAAG,IAAI,KAAK,EAAE,EAAE,KAAK,EAAE,KAAK,IAC9D,KAAK,CAAC,GAAG,CAAC,IAAI,CAAC,EAAE;gBAChB,MAAM,CAAC,GACL,CAAC,KAAK,CAAC,QAAQ;oBACb,CAAC,CAAC,KAAK,CAAC,GAAG,GAAG,IAAI,CAAC,IAAI;oBACvB,CAAC,CAAC,IAAI,CAAC,IAAI,GAAG,KAAK,CAAC,KAAK,CAAC,GAAG,KAAK,CAAC,OAAO,CAAA;gBAC9C,OAAO,CACL,uCACE,GAAG,EAAE,IAAI,CAAC,IAAI,EACd,SAAS,EAAE,EAAE,CACX,OAAO,CAAC,IAAI,EACZ,IAAI,CAAC,IAAI,KAAK,OAAO,IAAI,IAAI,CAAC,IAAI,KAAK,cAAc;wBACnD,CAAC,CAAC,OAAO,CAAC,SAAS;wBACnB,CAAC,CAAC,OAAO,CAAC,SAAS,CACtB,EACD,KAAK,EAAE,EAAE,IAAI,EAAE,CAAC,EAAE,GAClB,CACH,CAAA;YACH,CAAC,CAAC,CACoB,CACzB,CAAA;SACF;QACD,IAAI,KAAK,YAAY,wBAAW,EAAE;YAChC,OAAO,8BAAC,mBAAoB,IAAC,GAAG,EAAE,KAAK,CAAC,GAAG,EAAE,KAAK,EAAE,KAAK,CAAC,OAAO,GAAI,CAAA;SACtE;QACD,IAAI,KAAK,YAAY,oCAAuB,EAAE;YAC5C,OAAO,CACL,8BAAC,+BAAgC,IAC/B,GAAG,EAAE,KAAK,CAAC,GAAG,EACd,KAAK,EAAE,KAAK,CAAC,OAAO,EACpB,QAAQ,EAAE,KAAK,CAAC,OAAO,KAAK,UAAU,GACtC,CACH,CAAA;SACF;QACD,OAAO,IAAI,CAAA;IACb,CAAC,CAAC,CACD,CACJ,CAAA;AACH,CAAC,CAAC,CAAA;AACF,SAAS,cAAc,CAAC,EAAE,KAAK,EAAkB;IAC/C,MAAM,EAAE,OAAO,EAAE,GAAG,SAAS,EAAE,CAAA;IAC/B,iEAAiE;IACjE,MAAM,UAAU,GAAG,KAAK,CAAC,YAAY,CAAC,QAAQ,GAAG,KAAK,CAAC,QAAQ,CAAA;IAC/D,OAAO,CACL,uCACE,SAAS,EAAE,OAAO,CAAC,2BAA2B,EAC9C,KAAK,EAAE;YACL,SAAS,EACP,KAAK,CAAC,WAAW,KAAK,CAAC,CAAC,CAAC,CAAC,UAAU,KAAK,CAAC,WAAW,GAAG,CAAC,CAAC,CAAC,SAAS;SACvE;QAED,uCACE,SAAS,EAAE,OAAO,CAAC,uBAAuB,EAC1C,KAAK,EAAE;gBACL,IAAI,EAAE,UAAU;gBAChB,KAAK,EAAE,KAAK,CAAC,YAAY,CAAC,YAAY;aACvC;YAED,8BAAC,sBAAsB,IAAC,KAAK,EAAE,KAAK,GAAI,CACpC,CACF,CACP,CAAA;AACH,CAAC;AAED,kBAAe,IAAA,qBAAQ,EAAC,cAAc,CAAC,CAAA"}

package/dist/LinearGenomeView/components/Header.js

@@ -19,7 +19,6 @@ const ZoomControls_1 = __importDefault(require("./ZoomControls"));
 const SearchBox_1 = __importDefault(require("./SearchBox"));
 const useStyles = (0, mui_1.makeStyles)()(theme => ({
     headerBar: {
-        height: __1.HEADER_BAR_HEIGHT,
         display: 'flex',
     },
     headerForm: {
@@ -31,7 +30,7 @@ const useStyles = (0, mui_1.makeStyles)()(theme => ({
     },
     panButton: {
         background: (0, material_1.alpha)(theme.palette.background.paper, 0.8),
-        height: __1.WIDGET_HEIGHT,
+        color: theme.palette.text.primary,
         margin: __1.SPACING,
     },
     bp: {
@@ -42,7 +41,7 @@ const useStyles = (0, mui_1.makeStyles)()(theme => ({
     toggleButton: {
         height: 44,
         border: 'none',
-        margin: theme.spacing(0.5),
+        marginLeft: theme.spacing(4),
     },
     buttonSpacer: {
         marginRight: theme.spacing(2),
@@ -50,7 +49,7 @@ const useStyles = (0, mui_1.makeStyles)()(theme => ({
 }));
 const HeaderButtons = (0, mobx_react_1.observer)(({ model }) => {
     const { classes } = useStyles();
-    return (react_1.default.createElement(material_1.Button, { onClick: model.activateTrackSelector, className: classes.toggleButton, title: "Open track selector", value: "track_select", color: "secondary" },
+    return (react_1.default.createElement(material_1.IconButton, { onClick: model.activateTrackSelector, className: classes.toggleButton, title: "Open track selector", value: "track_select" },
         react_1.default.createElement(Icons_1.TrackSelector, { className: classes.buttonSpacer })));
 });
 function PanControls({ model }) {

package/dist/LinearGenomeView/components/Header.js.map

@@ -1 +1 @@
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package/dist/LinearGenomeView/components/LinearGenomeView.js

@@ -25,7 +25,7 @@ const LinearGenomeView = (0, mobx_react_1.observer)(({ model }) => {
     const { tracks, error, initialized, hasDisplayedRegions } = model;
     const { classes } = useStyles();
     if (!initialized && !error) {
-        return react_1.default.createElement(ui_1.LoadingEllipses, { variant: "h5" });
+        return react_1.default.createElement(ui_1.LoadingEllipses, { variant: "h6" });
     }
     if (!hasDisplayedRegions || error) {
         return react_1.default.createElement(ImportForm_1.default, { model: model });

package/dist/LinearGenomeView/components/MiniControls.js

@@ -29,21 +29,22 @@ Object.defineProperty(exports, "__esModule", { value: true });
 const react_1 = __importStar(require("react"));
 const mobx_react_1 = require("mobx-react");
 const material_1 = require("@mui/material");
+const Menu_1 = __importDefault(require("@jbrowse/core/ui/Menu"));
+// icons
 const ZoomIn_1 = __importDefault(require("@mui/icons-material/ZoomIn"));
 const ZoomOut_1 = __importDefault(require("@mui/icons-material/ZoomOut"));
 const KeyboardArrowDown_1 = __importDefault(require("@mui/icons-material/KeyboardArrowDown"));
-const Menu_1 = __importDefault(require("@jbrowse/core/ui/Menu"));
 const MiniControls = (0, mobx_react_1.observer)((props) => {
     const { model } = props;
     const { bpPerPx, maxBpPerPx, minBpPerPx, scaleFactor, hideHeader } = model;
     const [anchorEl, setAnchorEl] = (0, react_1.useState)();
     return hideHeader ? (react_1.default.createElement("div", { style: { position: 'absolute', right: '0px', zIndex: '1001' } },
         react_1.default.createElement(material_1.Paper, { style: { background: '#aaa7' } },
-            react_1.default.createElement(material_1.IconButton, { color: "secondary", onClick: event => setAnchorEl(event.currentTarget) },
+            react_1.default.createElement(material_1.IconButton, { onClick: event => setAnchorEl(event.currentTarget) },
                 react_1.default.createElement(KeyboardArrowDown_1.default, { fontSize: "small" })),
-            react_1.default.createElement(material_1.IconButton, { "data-testid": "zoom_out", onClick: () => model.zoom(bpPerPx * 2), disabled: bpPerPx >= maxBpPerPx - 0.0001 || scaleFactor !== 1, color: "secondary" },
+            react_1.default.createElement(material_1.IconButton, { "data-testid": "zoom_out", onClick: () => model.zoom(bpPerPx * 2), disabled: bpPerPx >= maxBpPerPx - 0.0001 || scaleFactor !== 1 },
                 react_1.default.createElement(ZoomOut_1.default, { fontSize: "small" })),
-            react_1.default.createElement(material_1.IconButton, { "data-testid": "zoom_in", onClick: () => model.zoom(model.bpPerPx / 2), disabled: bpPerPx <= minBpPerPx + 0.0001 || scaleFactor !== 1, color: "secondary" },
+            react_1.default.createElement(material_1.IconButton, { "data-testid": "zoom_in", onClick: () => model.zoom(model.bpPerPx / 2), disabled: bpPerPx <= minBpPerPx + 0.0001 || scaleFactor !== 1 },
                 react_1.default.createElement(ZoomIn_1.default, { fontSize: "small" })),
             react_1.default.createElement(Menu_1.default, { anchorEl: anchorEl, open: Boolean(anchorEl), onMenuItemClick: (_, callback) => {
                     callback();

package/dist/LinearGenomeView/components/MiniControls.js.map

@@ -1 +1 @@
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+{"version":3,"file":"MiniControls.js","sourceRoot":"","sources":["../../../src/LinearGenomeView/components/MiniControls.tsx"],"names":[],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;;;;AAAA,+CAAuC;AACvC,2CAAqC;AACrC,4CAAiD;AACjD,iEAAwC;AAExC,QAAQ;AACR,wEAA+C;AAC/C,0EAAiD;AACjD,8FAA6D;AAK7D,MAAM,YAAY,GAAG,IAAA,qBAAQ,EAAC,CAAC,KAAuC,EAAE,EAAE;IACxE,MAAM,EAAE,KAAK,EAAE,GAAG,KAAK,CAAA;IACvB,MAAM,EAAE,OAAO,EAAE,UAAU,EAAE,UAAU,EAAE,WAAW,EAAE,UAAU,EAAE,GAAG,KAAK,CAAA;IAC1E,MAAM,CAAC,QAAQ,EAAE,WAAW,CAAC,GAAG,IAAA,gBAAQ,GAAe,CAAA;IAEvD,OAAO,UAAU,CAAC,CAAC,CAAC,CAClB,uCAAK,KAAK,EAAE,EAAE,QAAQ,EAAE,UAAU,EAAE,KAAK,EAAE,KAAK,EAAE,MAAM,EAAE,MAAM,EAAE;QAChE,8BAAC,gBAAK,IAAC,KAAK,EAAE,EAAE,UAAU,EAAE,OAAO,EAAE;YACnC,8BAAC,qBAAU,IAAC,OAAO,EAAE,KAAK,CAAC,EAAE,CAAC,WAAW,CAAC,KAAK,CAAC,aAAa,CAAC;gBAC5D,8BAAC,2BAAS,IAAC,QAAQ,EAAC,OAAO,GAAG,CACnB;YAEb,8BAAC,qBAAU,mBACG,UAAU,EACtB,OAAO,EAAE,GAAG,EAAE,CAAC,KAAK,CAAC,IAAI,CAAC,OAAO,GAAG,CAAC,CAAC,EACtC,QAAQ,EAAE,OAAO,IAAI,UAAU,GAAG,MAAM,IAAI,WAAW,KAAK,CAAC;gBAE7D,8BAAC,iBAAO,IAAC,QAAQ,EAAC,OAAO,GAAG,CACjB;YACb,8BAAC,qBAAU,mBACG,SAAS,EACrB,OAAO,EAAE,GAAG,EAAE,CAAC,KAAK,CAAC,IAAI,CAAC,KAAK,CAAC,OAAO,GAAG,CAAC,CAAC,EAC5C,QAAQ,EAAE,OAAO,IAAI,UAAU,GAAG,MAAM,IAAI,WAAW,KAAK,CAAC;gBAE7D,8BAAC,gBAAM,IAAC,QAAQ,EAAC,OAAO,GAAG,CAChB;YACb,8BAAC,cAAI,IACH,QAAQ,EAAE,QAAQ,EAClB,IAAI,EAAE,OAAO,CAAC,QAAQ,CAAC,EACvB,eAAe,EAAE,CAAC,CAAC,EAAE,QAAQ,EAAE,EAAE;oBAC/B,QAAQ,EAAE,CAAA;oBACV,WAAW,CAAC,SAAS,CAAC,CAAA;gBACxB,CAAC,EACD,OAAO,EAAE,GAAG,EAAE,CAAC,WAAW,CAAC,SAAS,CAAC,EACrC,SAAS,EAAE,KAAK,CAAC,SAAS,EAAE,GAC5B,CACI,CACJ,CACP,CAAC,CAAC,CAAC,IAAI,CAAA;AACV,CAAC,CAAC,CAAA;AAEF,kBAAe,YAAY,CAAA"}