@jbrowse/plugin-linear-genome-view 2.3.3 → 2.4.0

package/esm/BaseLinearDisplay/models/BaseLinearDisplayModel.js

@@ -2,7 +2,7 @@
 import React from 'react';
 import { BaseDisplay } from '@jbrowse/core/pluggableElementTypes/models';
 import { getConf } from '@jbrowse/core/configuration';
-import { isAbortException, getContainingView, getContainingTrack, getSession, getViewParams, isSelectionContainer, isSessionModelWithWidgets, isFeature, } from '@jbrowse/core/util';
+import { isAbortException, getContainingView, getContainingTrack, getSession, getViewParams, isSelectionContainer, isSessionModelWithWidgets, isFeature, ReactRendering, } from '@jbrowse/core/util';
 import CompositeMap from '@jbrowse/core/util/compositeMap';
 import { getParentRenderProps, getRpcSessionId, } from '@jbrowse/core/util/tracks';
 import { autorun } from 'mobx';
@@ -31,7 +31,6 @@ function getDisplayStr(totalBytes) {
     return displayBp;
 }
 const minDisplayHeight = 20;
-const defaultDisplayHeight = 100;
 /**
  * #stateModel BaseLinearDisplay
  * extends `BaseDisplay`
@@ -42,7 +41,7 @@ function stateModelFactory() {
         /**
          * #property
          */
-        height: types.optional(types.refinement('displayHeight', types.number, n => n >= minDisplayHeight), defaultDisplayHeight),
+        heightPreConfig: types.maybe(types.refinement('displayHeight', types.number, n => n >= minDisplayHeight)),
         /**
          * #property
          * updated via autorun
@@ -67,6 +66,10 @@ function stateModelFactory() {
         estimatedRegionStats: undefined,
     }))
         .views(self => ({
+        get height() {
+            var _a;
+            return (_a = self.heightPreConfig) !== null && _a !== void 0 ? _a : getConf(self, 'height');
+        },
         /**
          * #getter
          */
@@ -299,10 +302,10 @@ function stateModelFactory() {
          */
         setHeight(displayHeight) {
             if (displayHeight > minDisplayHeight) {
-                self.height = displayHeight;
+                self.heightPreConfig = displayHeight;
             }
             else {
-                self.height = minDisplayHeight;
+                self.heightPreConfig = minDisplayHeight;
             }
             return self.height;
         },
@@ -608,7 +611,7 @@ function stateModelFactory() {
             const { overrideHeight } = opts;
             const view = getContainingView(self);
             const { offsetPx: viewOffsetPx, roundedDynamicBlocks, width } = view;
-            const renderings = await Promise.all(roundedDynamicBlocks.map(block => {
+            const renderings = await Promise.all(roundedDynamicBlocks.map(async (block) => {
                 const blockState = BlockState.create({
                     key: block.key,
                     region: block,
@@ -618,35 +621,51 @@ function stateModelFactory() {
                 const cannotBeRenderedReason = self.regionCannotBeRenderedText(block) ||
                     self.regionCannotBeRendered(block);
                 if (cannotBeRenderedReason) {
-                    return {
-                        reactElement: (React.createElement(React.Fragment, null,
-                            React.createElement("rect", { x: 0, y: 0, width: width, height: 20, fill: "#aaa" }),
-                            React.createElement("text", { x: 0, y: 15 }, cannotBeRenderedReason))),
-                    };
+                    return [
+                        block,
+                        {
+                            reactElement: (React.createElement(React.Fragment, null,
+                                React.createElement("rect", { x: 0, y: 0, width: width, height: 20, fill: "#aaa" }),
+                                React.createElement("text", { x: 0, y: 15 }, cannotBeRenderedReason))),
+                        },
+                    ];
                 }
                 const { rpcManager, renderArgs, renderProps, rendererType } = renderBlockData(blockState, self);
-                return rendererType.renderInClient(rpcManager, {
-                    ...renderArgs,
-                    ...renderProps,
-                    viewParams: getViewParams(self, true),
-                    exportSVG: opts,
-                });
+                return [
+                    block,
+                    await rendererType.renderInClient(rpcManager, {
+                        ...renderArgs,
+                        ...renderProps,
+                        viewParams: getViewParams(self, true),
+                        exportSVG: opts,
+                        theme: opts.theme || renderProps.theme,
+                    }),
+                ];
             }));
-            return (React.createElement(React.Fragment, null, renderings.map((rendering, index) => {
-                const { offsetPx } = roundedDynamicBlocks[index];
+            return (React.createElement(React.Fragment, null, renderings.map(([block, rendering], index) => {
+                const { offsetPx, widthPx } = block;
                 const offset = offsetPx - viewOffsetPx;
                 const clipid = getId(id, index);
                 return (React.createElement(React.Fragment, { key: `frag-${index}` },
                     React.createElement("defs", null,
                         React.createElement("clipPath", { id: clipid },
-                            React.createElement("rect", { x: 0, y: 0, width: width, height: overrideHeight || height }))),
+                            React.createElement("rect", { x: 0, y: 0, width: widthPx, height: overrideHeight || height }))),
                     React.createElement("g", { transform: `translate(${offset} 0)` },
-                        React.createElement("g", { clipPath: `url(#${clipid})` }, React.isValidElement(rendering.reactElement) ? (rendering.reactElement) : (React.createElement("g", { 
-                            /* eslint-disable-next-line react/no-danger */
-                            dangerouslySetInnerHTML: { __html: rendering.html } }))))));
+                        React.createElement("g", { clipPath: `url(#${clipid})` },
+                            React.createElement(ReactRendering, { rendering: rendering })))));
             })));
         },
     }))
+        .preProcessSnapshot(snap => {
+        if (!snap) {
+            return snap;
+        }
+        // rewrite "height" from older snapshots to "heightPreConfig", this allows
+        // us to maintain a height "getter" going forward
+        // @ts-ignore
+        const { height, ...rest } = snap;
+        return { heightPreConfig: height, ...rest };
+    })
         .postProcessSnapshot(self => {
         // xref https://github.com/mobxjs/mobx-state-tree/issues/1524 for Omit
         const r = self;

package/esm/BaseLinearDisplay/models/BaseLinearDisplayModel.js.map

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package/esm/BaseLinearDisplay/models/configSchema.js

@@ -23,6 +23,14 @@ const baseLinearDisplayConfigSchema = ConfigurationSchema('BaseLinearDisplay', {
         defaultValue: 1000000,
         description: "maximum data to attempt to download for a given track, used if adapter doesn't specify one",
     },
+    /**
+     * #slot
+     */
+    height: {
+        type: 'number',
+        defaultValue: 100,
+        description: 'default height for the track',
+    },
 }, {
     /**
      * #identifier

package/esm/BaseLinearDisplay/models/configSchema.js.map

@@ -1 +1 @@
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+{"version":3,"file":"configSchema.js","sourceRoot":"","sources":["../../../src/BaseLinearDisplay/models/configSchema.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,mBAAmB,EAAE,MAAM,6BAA6B,CAAA;AAEjE;;;;;GAKG;AACH,SAAS,CAAC,KAAI,CAAC,CAAC,wDAAwD;AAExE,MAAM,6BAA6B,GAAG,mBAAmB,CACvD,mBAAmB,EACnB;IACE;;OAEG;IACH,uBAAuB,EAAE;QACvB,IAAI,EAAE,QAAQ;QACd,WAAW,EACT,qGAAqG;QACvG,YAAY,EAAE,GAAG;KAClB;IACD;;OAEG;IACH,cAAc,EAAE;QACd,IAAI,EAAE,QAAQ;QACd,YAAY,EAAE,OAAS;QACvB,WAAW,EACT,4FAA4F;KAC/F;IACD;;OAEG;IACH,MAAM,EAAE;QACN,IAAI,EAAE,QAAQ;QACd,YAAY,EAAE,GAAG;QACjB,WAAW,EAAE,8BAA8B;KAC5C;CACF,EACD;IACE;;OAEG;IACH,kBAAkB,EAAE,WAAW;CAChC,CACF,CAAA;AAED,eAAe,6BAA6B,CAAA"}

package/esm/BaseLinearDisplay/models/serverSideRenderedBlock.d.ts

@@ -44,7 +44,7 @@ declare const blockState: import("mobx-state-tree").IModelType<{
         maxHeightReached: boolean;
         renderProps: any;
     } | undefined): void;
-    setError(error: Error | unknown): void;
+    setError(error: unknown): void;
     reload(): void;
     beforeDestroy(): void;
 }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;

package/esm/BaseLinearDisplay/models/serverSideRenderedBlock.js

@@ -4,6 +4,7 @@ import { assembleLocString, getSession, getContainingDisplay, getContainingView,
 import { Region } from '@jbrowse/core/util/types/mst';
 import { isRetryException, } from '@jbrowse/core/util/types';
 import { getTrackAssemblyNames, getRpcSessionId, } from '@jbrowse/core/util/tracks';
+// locals
 import ServerSideRenderedBlockContent from '../components/ServerSideRenderedBlockContent';
 // the MST state of a single server-side-rendered block in a display
 const blockState = types
@@ -194,6 +195,9 @@ export function renderBlockData(self, optDisplay) {
     }
 }
 async function renderBlockEffect(props, signal, self) {
+    if (!props) {
+        return;
+    }
     const { rendererType, renderProps, rpcManager, renderArgs, cannotBeRenderedReason, displayError, } = props;
     if (!isAlive(self)) {
         return undefined;
@@ -220,6 +224,7 @@ async function renderBlockEffect(props, signal, self) {
         features,
         layout,
         maxHeightReached,
+        renderProps,
     };
 }
 //# sourceMappingURL=serverSideRenderedBlock.js.map

package/esm/BaseLinearDisplay/models/serverSideRenderedBlock.js.map

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+{"version":3,"file":"serverSideRenderedBlock.js","sourceRoot":"","sources":["../../../src/BaseLinearDisplay/models/serverSideRenderedBlock.ts"],"names":[],"mappings":"AAEA,OAAO,EACL,KAAK,EACL,SAAS,EACT,OAAO,EACP,IAAI,EAEJ,WAAW,GACZ,MAAM,iBAAiB,CAAA;AACxB,OAAO,EAAE,cAAc,EAAE,MAAM,6BAA6B,CAAA;AAC5D,OAAO,EACL,iBAAiB,EACjB,UAAU,EACV,oBAAoB,EACpB,iBAAiB,EACjB,aAAa,EACb,qBAAqB,GAEtB,MAAM,oBAAoB,CAAA;AAC3B,OAAO,EAAE,MAAM,EAAE,MAAM,8BAA8B,CAAA;AACrD,OAAO,EAEL,gBAAgB,GACjB,MAAM,0BAA0B,CAAA;AAEjC,OAAO,EACL,qBAAqB,EACrB,eAAe,GAChB,MAAM,2BAA2B,CAAA;AAElC,SAAS;AACT,OAAO,8BAA8B,MAAM,8CAA8C,CAAA;AAEzF,oEAAoE;AACpE,MAAM,UAAU,GAAG,KAAK;KACrB,KAAK,CAAC,YAAY,EAAE;IACnB,GAAG,EAAE,KAAK,CAAC,MAAM;IACjB,MAAM,EAAE,MAAM;IACd,UAAU,EAAE,CAAC;IACb,0BAA0B,EAAE,KAAK;IACjC,2BAA2B,EAAE,KAAK;CACnC,CAAC;IACF,yFAAyF;KACxF,QAAQ,CAAC,GAAG,EAAE,CAAC,CAAC;IACf,gBAAgB,EAAE,SAAwC;IAC1D,MAAM,EAAE,KAAK;IACb,YAAY,EAAE,SAA2C;IACzD,QAAQ,EAAE,SAA6C;IACvD,MAAM,EAAE,SAAgB;IACxB,MAAM,EAAE,EAAE;IACV,KAAK,EAAE,SAAoB;IAC3B,OAAO,EAAE,SAA+B;IACxC,gBAAgB,EAAE,KAAK;IACvB,cAAc,EAAE,8BAA8B;IAC9C,WAAW,EAAE,SAAgB;CAC9B,CAAC,CAAC;KACF,OAAO,CAAC,IAAI,CAAC,EAAE;IACd,IAAI,gBAA6C,CAAA;IACjD,OAAO;QACL,QAAQ;YACN,IAAI,CAAC,UAAU,GAAG,IAAI,CAAC,UAAU,GAAG,CAAC,CAAA;QACvC,CAAC;QACD,WAAW;YACT,MAAM,OAAO,GAAG,oBAAoB,CAAC,IAAI,CAAC,CAAA;YAC1C,qBAAqB,CACnB,IAAW,EACX,eAAe,EACf,iBAAiB,EAAE,qCAAqC;YACxD;gBACE,IAAI,EAAE,GAAG,OAAO,CAAC,EAAE,IAAI,iBAAiB,CAAC,IAAI,CAAC,MAAM,CAAC,YAAY;gBACjE,KAAK,EAAE,OAAO,CAAC,WAAW;gBAC1B,eAAe,EAAE,IAAI;aACtB,EACD,IAAI,CAAC,UAAU,EACf,IAAI,CAAC,WAAW,EAChB,IAAI,CAAC,QAAQ,CACd,CAAA;QACH,CAAC;QACD,SAAS,CAAC,OAAe;YACvB,IAAI,CAAC,MAAM,GAAG,OAAO,CAAA;QACvB,CAAC;QACD,UAAU,CAAC,eAAgC;YACzC,IAAI,gBAAgB,KAAK,SAAS,EAAE;gBAClC,IAAI,CAAC,gBAAgB,CAAC,MAAM,CAAC,OAAO,EAAE;oBACpC,gBAAgB,CAAC,KAAK,EAAE,CAAA;iBACzB;aACF;YACD,IAAI,CAAC,MAAM,GAAG,KAAK,CAAA;YACnB,IAAI,CAAC,OAAO,GAAG,SAAS,CAAA;YACxB,IAAI,CAAC,YAAY,GAAG,SAAS,CAAA;YAC7B,IAAI,CAAC,QAAQ,GAAG,SAAS,CAAA;YACzB,IAAI,CAAC,MAAM,GAAG,SAAS,CAAA;YACvB,IAAI,CAAC,KAAK,GAAG,SAAS,CAAA;YACtB,IAAI,CAAC,gBAAgB,GAAG,KAAK,CAAA;YAC7B,IAAI,CAAC,WAAW,GAAG,SAAS,CAAA;YAC5B,gBAAgB,GAAG,eAAe,CAAA;QACpC,CAAC;QACD,UAAU,CAAC,WAAmB;YAC5B,IAAI,gBAAgB,IAAI,CAAC,gBAAgB,CAAC,MAAM,CAAC,OAAO,EAAE;gBACxD,gBAAgB,CAAC,KAAK,EAAE,CAAA;aACzB;YACD,IAAI,CAAC,MAAM,GAAG,KAAK,CAAA;YACnB,IAAI,CAAC,OAAO,GAAG,WAAW,CAAA;YAC1B,IAAI,CAAC,YAAY,GAAG,SAAS,CAAA;YAC7B,IAAI,CAAC,QAAQ,GAAG,SAAS,CAAA;YACzB,IAAI,CAAC,MAAM,GAAG,SAAS,CAAA;YACvB,IAAI,CAAC,KAAK,GAAG,SAAS,CAAA;YACtB,IAAI,CAAC,gBAAgB,GAAG,KAAK,CAAA;YAC7B,IAAI,CAAC,WAAW,GAAG,SAAS,CAAA;YAC5B,gBAAgB,GAAG,SAAS,CAAA;QAC9B,CAAC;QACD,WAAW,CACT,KAQa;YAEb,IAAI,CAAC,KAAK,EAAE;gBACV,OAAM;aACP;YACD,MAAM,EACJ,YAAY,EACZ,QAAQ,EACR,MAAM,EACN,gBAAgB,EAChB,WAAW,GACZ,GAAG,KAAK,CAAA;YACT,IAAI,CAAC,MAAM,GAAG,IAAI,CAAA;YAClB,IAAI,CAAC,OAAO,GAAG,SAAS,CAAA;YACxB,IAAI,CAAC,YAAY,GAAG,YAAY,CAAA;YAChC,IAAI,CAAC,QAAQ,GAAG,QAAQ,CAAA;YACxB,IAAI,CAAC,MAAM,GAAG,MAAM,CAAA;YACpB,IAAI,CAAC,KAAK,GAAG,SAAS,CAAA;YACtB,IAAI,CAAC,gBAAgB,GAAG,gBAAgB,CAAA;YACxC,IAAI,CAAC,WAAW,GAAG,WAAW,CAAA;YAC9B,gBAAgB,GAAG,SAAS,CAAA;QAC9B,CAAC;QACD,QAAQ,CAAC,KAAc;YACrB,OAAO,CAAC,KAAK,CAAC,KAAK,CAAC,CAAA;YACpB,IAAI,gBAAgB,IAAI,CAAC,gBAAgB,CAAC,MAAM,CAAC,OAAO,EAAE;gBACxD,gBAAgB,CAAC,KAAK,EAAE,CAAA;aACzB;YACD,uCAAuC;YACvC,IAAI,CAAC,MAAM,GAAG,KAAK,CAAA;YACnB,IAAI,CAAC,OAAO,GAAG,SAAS,CAAA;YACxB,IAAI,CAAC,YAAY,GAAG,SAAS,CAAA;YAC7B,IAAI,CAAC,QAAQ,GAAG,SAAS,CAAA;YACzB,IAAI,CAAC,MAAM,GAAG,SAAS,CAAA;YACvB,IAAI,CAAC,gBAAgB,GAAG,KAAK,CAAA;YAC7B,IAAI,CAAC,KAAK,GAAG,KAAK,CAAA;YAClB,IAAI,CAAC,WAAW,GAAG,SAAS,CAAA;YAC5B,gBAAgB,GAAG,SAAS,CAAA;YAC5B,IAAI,gBAAgB,CAAC,KAAc,CAAC,EAAE;gBACpC,IAAI,CAAC,MAAM,EAAE,CAAA;aACd;QACH,CAAC;QACD,MAAM;YACJ,IAAI,CAAC,gBAAgB,GAAG,SAAS,CAAA;YACjC,IAAI,CAAC,MAAM,GAAG,KAAK,CAAA;YACnB,IAAI,CAAC,YAAY,GAAG,SAAS,CAAA;YAC7B,IAAI,CAAC,QAAQ,GAAG,SAAS,CAAA;YACzB,IAAI,CAAC,MAAM,GAAG,SAAS,CAAA;YACvB,IAAI,CAAC,KAAK,GAAG,SAAS,CAAA;YACtB,IAAI,CAAC,OAAO,GAAG,SAAS,CAAA;YACxB,IAAI,CAAC,gBAAgB,GAAG,KAAK,CAAA;YAC7B,IAAI,CAAC,cAAc,GAAG,8BAA8B,CAAA;YACpD,IAAI,CAAC,WAAW,GAAG,SAAS,CAAA;YAC5B,SAAS,CAAM,IAAI,EAAE,CAAC,CAAC,CAAC,MAAM,EAAE,CAAA;QAClC,CAAC;QACD,aAAa;YACX,IAAI,gBAAgB,IAAI,CAAC,gBAAgB,CAAC,MAAM,CAAC,OAAO,EAAE;gBACxD,gBAAgB,CAAC,KAAK,EAAE,CAAA;aACzB;YACD,MAAM,OAAO,GAAG,oBAAoB,CAAC,IAAI,CAAC,CAAA;YAC1C,MAAM,EAAE,UAAU,EAAE,GAAG,UAAU,CAAC,IAAI,CAAC,CAAA;YACvC,MAAM,EAAE,YAAY,EAAE,GAAG,OAAO,CAAA;YAChC,MAAM,EAAE,UAAU,EAAE,GAAG,eAAe,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC,CAAA;YAClD,iEAAiE;YACjE,IAAI,UAAU,EAAE;gBACd,YAAY;qBACT,qBAAqB,CACpB,UAAU,EACV,IAAI,CAAC,KAAK,CAAC,IAAI,CAAC,SAAS,CAAC,UAAU,CAAC,CAAC,CACvC;qBACA,KAAK,CAAC,CAAC,CAAQ,EAAE,EAAE;oBAClB,kEAAkE;oBAClE,OAAO,CAAC,IAAI,CAAC,8BAA8B,EAAE,CAAC,CAAC,CAAA;gBACjD,CAAC,CAAC,CAAA;aACL;QACH,CAAC;KACF,CAAA;AACH,CAAC,CAAC,CAAA;AAEJ,eAAe,UAAU,CAAA;AAIzB,2EAA2E;AAC3E,mDAAmD;AACnD,MAAM,UAAU,eAAe,CAC7B,IAAgB,EAChB,UAAiC;IAEjC,IAAI;QACF,MAAM,OAAO,GAAG,UAAU,IAAK,oBAAoB,CAAC,IAAI,CAAS,CAAA;QACjE,MAAM,EAAE,eAAe,EAAE,UAAU,EAAE,GAAG,UAAU,CAAC,OAAO,CAAC,CAAA;QAC3D,MAAM,EAAE,aAAa,EAAE,YAAY,EAAE,KAAK,EAAE,WAAW,EAAE,GAAG,OAAO,CAAA;QACnE,MAAM,aAAa,GAAG,qB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package/esm/LinearBareDisplay/model.d.ts

@@ -9,7 +9,7 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
     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<{
@@ -128,6 +128,7 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
     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;
 } & {
@@ -157,7 +158,7 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
     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;
@@ -190,6 +191,7 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
 } & {
     renderSvg(opts: import("../LinearGenomeView").ExportSvgOptions & {
         overrideHeight: number;
+        theme: import("@mui/material").ThemeOptions;
     }): Promise<JSX.Element>;
 } & {
     /**
@@ -200,11 +202,67 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
      * #getter
      */
     readonly rendererTypeName: any;
-}, 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>;
+            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;
+        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/esm/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/esm/LinearGenomeView/components/CenterLine.js

@@ -1,13 +1,13 @@
 import React, { useRef } from 'react';
 import { makeStyles } from 'tss-react/mui';
 import { observer } from 'mobx-react';
-const useStyles = makeStyles()(() => ({
+const useStyles = 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/esm/LinearGenomeView/components/CenterLine.js.map

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