@jbrowse/plugin-linear-comparative-view 2.9.0 → 2.10.0

package/dist/LinearSyntenyView/model.d.ts

@@ -6,7 +6,9 @@ export interface ExportSvgOptions {
     rasterizeLayers?: boolean;
     scale?: number;
     filename?: string;
-    Wrapper?: React.FC<any>;
+    Wrapper?: React.FC<{
+        children: React.ReactNode;
+    }>;
     fontSize?: number;
     rulerHeight?: number;
     textHeight?: number;
@@ -18,7 +20,8 @@ export interface ExportSvgOptions {
 }
 /**
  * #stateModel LinearSyntenyView
- * extends the `LinearComparativeView` base model
+ * extends
+ * - [LinearComparativeView](../linearcomparativeview)
  */
 export default function stateModelFactory(pluginManager: PluginManager): import("mobx-state-tree").IModelType<{
     id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
@@ -45,10 +48,14 @@ export default function stateModelFactory(pluginManager: PluginManager): import(
         displayedRegions: import("mobx-state-tree").IArrayType<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>;
+            end: import("mobx-state-tree").ISimpleType<number>; /**
+             * #property/
+             */
             reversed: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
         } & {
-            assemblyName: import("mobx-state-tree").ISimpleType<string>;
+            assemblyName: import("mobx-state-tree").ISimpleType<string>; /**
+             * #action
+             */
         }, {
             setRefName(newRefName: string): void;
         }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
@@ -203,11 +210,11 @@ export default function stateModelFactory(pluginManager: PluginManager): import(
             } & {
                 getConf(arg: string): any;
             } & {
-                readonly initialized: boolean;
-                readonly name: string;
-                readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined; /**
-                 * #property
+                readonly initialized: boolean; /**
+                 * #property/
                  */
+                readonly name: string;
+                readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
                 readonly aliases: string[];
                 readonly displayName: string | undefined;
                 hasName(name: string): boolean;
@@ -237,11 +244,17 @@ export default function stateModelFactory(pluginManager: PluginManager): import(
                 load(): Promise<void>;
                 loadPre(): Promise<void>;
             } & {
-                getAdapterMapEntry(adapterConf: unknown, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
-                getRefNameMapForAdapter(adapterConf: unknown, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                getAdapterMapEntry(adapterConf: {
+                    [x: string]: unknown;
+                }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
+                getRefNameMapForAdapter(adapterConf: {
+                    [x: string]: unknown;
+                }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
                     [x: string]: string | undefined;
                 }>;
-                getReverseRefNameMapForAdapter(adapterConf: unknown, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                getReverseRefNameMapForAdapter(adapterConf: {
+                    [x: string]: unknown;
+                }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
                     [x: string]: string | undefined;
                 }>;
             } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
@@ -261,11 +274,11 @@ export default function stateModelFactory(pluginManager: PluginManager): import(
             } & {
                 getConf(arg: string): any;
             } & {
-                readonly initialized: boolean;
-                readonly name: string;
-                readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined; /**
-                 * #property
+                readonly initialized: boolean; /**
+                 * #property/
                  */
+                readonly name: string;
+                readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
                 readonly aliases: string[];
                 readonly displayName: string | undefined;
                 hasName(name: string): boolean;
@@ -295,11 +308,17 @@ export default function stateModelFactory(pluginManager: PluginManager): import(
                 load(): Promise<void>;
                 loadPre(): Promise<void>;
             } & {
-                getAdapterMapEntry(adapterConf: unknown, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
-                getRefNameMapForAdapter(adapterConf: unknown, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                getAdapterMapEntry(adapterConf: {
+                    [x: string]: unknown;
+                }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
+                getRefNameMapForAdapter(adapterConf: {
+                    [x: string]: unknown;
+                }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
                     [x: string]: string | undefined;
                 }>;
-                getReverseRefNameMapForAdapter(adapterConf: unknown, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                getReverseRefNameMapForAdapter(adapterConf: {
+                    [x: string]: unknown;
+                }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
                     [x: string]: string | undefined;
                 }>;
             }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
@@ -380,10 +399,14 @@ export default function stateModelFactory(pluginManager: PluginManager): import(
         displayedRegions: import("mobx-state-tree").IArrayType<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>;
+            end: import("mobx-state-tree").ISimpleType<number>; /**
+             * #property/
+             */
             reversed: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
         } & {
-            assemblyName: import("mobx-state-tree").ISimpleType<string>;
+            assemblyName: import("mobx-state-tree").ISimpleType<string>; /**
+             * #action
+             */
         }, {
             setRefName(newRefName: string): void;
         }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
@@ -407,19 +430,27 @@ export default function stateModelFactory(pluginManager: PluginManager): import(
         displayedRegions: import("mobx-state-tree").IMSTArray<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>;
+            end: import("mobx-state-tree").ISimpleType<number>; /**
+             * #property/
+             */
             reversed: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
         } & {
-            assemblyName: import("mobx-state-tree").ISimpleType<string>;
+            assemblyName: import("mobx-state-tree").ISimpleType<string>; /**
+             * #action
+             */
         }, {
             setRefName(newRefName: string): void;
         }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>> & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IArrayType<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>;
+            end: import("mobx-state-tree").ISimpleType<number>; /**
+             * #property/
+             */
             reversed: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
         } & {
-            assemblyName: import("mobx-state-tree").ISimpleType<string>;
+            assemblyName: import("mobx-state-tree").ISimpleType<string>; /**
+             * #action
+             */
         }, {
             setRefName(newRefName: string): void;
         }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>>;
@@ -574,11 +605,11 @@ export default function stateModelFactory(pluginManager: PluginManager): import(
             } & {
                 getConf(arg: string): any;
             } & {
-                readonly initialized: boolean;
-                readonly name: string;
-                readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined; /**
-                 * #property
+                readonly initialized: boolean; /**
+                 * #property/
                  */
+                readonly name: string;
+                readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
                 readonly aliases: string[];
                 readonly displayName: string | undefined;
                 hasName(name: string): boolean;
@@ -608,11 +639,17 @@ export default function stateModelFactory(pluginManager: PluginManager): import(
                 load(): Promise<void>;
                 loadPre(): Promise<void>;
             } & {
-                getAdapterMapEntry(adapterConf: unknown, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
-                getRefNameMapForAdapter(adapterConf: unknown, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                getAdapterMapEntry(adapterConf: {
+                    [x: string]: unknown;
+                }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
+                getRefNameMapForAdapter(adapterConf: {
+                    [x: string]: unknown;
+                }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
                     [x: string]: string | undefined;
                 }>;
-                getReverseRefNameMapForAdapter(adapterConf: unknown, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                getReverseRefNameMapForAdapter(adapterConf: {
+                    [x: string]: unknown;
+                }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
                     [x: string]: string | undefined;
                 }>;
             } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
@@ -632,11 +669,11 @@ export default function stateModelFactory(pluginManager: PluginManager): import(
             } & {
                 getConf(arg: string): any;
             } & {
-                readonly initialized: boolean;
-                readonly name: string;
-                readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined; /**
-                 * #property
+                readonly initialized: boolean; /**
+                 * #property/
                  */
+                readonly name: string;
+                readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
                 readonly aliases: string[];
                 readonly displayName: string | undefined;
                 hasName(name: string): boolean;
@@ -666,11 +703,17 @@ export default function stateModelFactory(pluginManager: PluginManager): import(
                 load(): Promise<void>;
                 loadPre(): Promise<void>;
             } & {
-                getAdapterMapEntry(adapterConf: unknown, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
-                getRefNameMapForAdapter(adapterConf: unknown, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                getAdapterMapEntry(adapterConf: {
+                    [x: string]: unknown;
+                }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
+                getRefNameMapForAdapter(adapterConf: {
+                    [x: string]: unknown;
+                }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
                     [x: string]: string | undefined;
                 }>;
-                getReverseRefNameMapForAdapter(adapterConf: unknown, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                getReverseRefNameMapForAdapter(adapterConf: {
+                    [x: string]: unknown;
+                }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
                     [x: string]: string | undefined;
                 }>;
             }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
@@ -725,10 +768,14 @@ export default function stateModelFactory(pluginManager: PluginManager): import(
         displayedRegions: import("mobx-state-tree").IArrayType<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>;
+            end: import("mobx-state-tree").ISimpleType<number>; /**
+             * #property/
+             */
             reversed: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
         } & {
-            assemblyName: import("mobx-state-tree").ISimpleType<string>;
+            assemblyName: import("mobx-state-tree").ISimpleType<string>; /**
+             * #action
+             */
         }, {
             setRefName(newRefName: string): void;
         }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
@@ -883,11 +930,11 @@ export default function stateModelFactory(pluginManager: PluginManager): import(
             } & {
                 getConf(arg: string): any;
             } & {
-                readonly initialized: boolean;
-                readonly name: string;
-                readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined; /**
-                 * #property
+                readonly initialized: boolean; /**
+                 * #property/
                  */
+                readonly name: string;
+                readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
                 readonly aliases: string[];
                 readonly displayName: string | undefined;
                 hasName(name: string): boolean;
@@ -917,11 +964,17 @@ export default function stateModelFactory(pluginManager: PluginManager): import(
                 load(): Promise<void>;
                 loadPre(): Promise<void>;
             } & {
-                getAdapterMapEntry(adapterConf: unknown, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
-                getRefNameMapForAdapter(adapterConf: unknown, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                getAdapterMapEntry(adapterConf: {
+                    [x: string]: unknown;
+                }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
+                getRefNameMapForAdapter(adapterConf: {
+                    [x: string]: unknown;
+                }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
                     [x: string]: string | undefined;
                 }>;
-                getReverseRefNameMapForAdapter(adapterConf: unknown, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                getReverseRefNameMapForAdapter(adapterConf: {
+                    [x: string]: unknown;
+                }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
                     [x: string]: string | undefined;
                 }>;
             } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
@@ -941,11 +994,11 @@ export default function stateModelFactory(pluginManager: PluginManager): import(
             } & {
                 getConf(arg: string): any;
             } & {
-                readonly initialized: boolean;
-                readonly name: string;
-                readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined; /**
-                 * #property
+                readonly initialized: boolean; /**
+                 * #property/
                  */
+                readonly name: string;
+                readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
                 readonly aliases: string[];
                 readonly displayName: string | undefined;
                 hasName(name: string): boolean;
@@ -975,11 +1028,17 @@ export default function stateModelFactory(pluginManager: PluginManager): import(
                 load(): Promise<void>;
                 loadPre(): Promise<void>;
             } & {
-                getAdapterMapEntry(adapterConf: unknown, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
-                getRefNameMapForAdapter(adapterConf: unknown, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                getAdapterMapEntry(adapterConf: {
+                    [x: string]: unknown;
+                }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
+                getRefNameMapForAdapter(adapterConf: {
+                    [x: string]: unknown;
+                }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
                     [x: string]: string | undefined;
                 }>;
-                getReverseRefNameMapForAdapter(adapterConf: unknown, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
+                getReverseRefNameMapForAdapter(adapterConf: {
+                    [x: string]: unknown;
+                }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
                     [x: string]: string | undefined;
                 }>;
             }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
@@ -1056,6 +1115,9 @@ export default function stateModelFactory(pluginManager: PluginManager): import(
      */
     showAllRegions(): void;
 } & {
+    /**
+     * #action
+     */
     exportSvg(opts: ExportSvgOptions): Promise<void>;
 } & {
     /**
@@ -1105,6 +1167,9 @@ export default function stateModelFactory(pluginManager: PluginManager): import(
         checked?: undefined;
         type?: undefined;
     })[];
+    /**
+     * #method
+     */
     menuItems(): (import("@jbrowse/core/ui").MenuDivider | import("@jbrowse/core/ui").MenuSubHeader | import("@jbrowse/core/ui").NormalMenuItem | import("@jbrowse/core/ui").CheckboxMenuItem | import("@jbrowse/core/ui").RadioMenuItem | import("@jbrowse/core/ui").SubMenuItem | {
         label: string;
         icon: import("@mui/material/OverridableComponent").OverridableComponent<import("@mui/material").SvgIconTypeMap<{}, "svg">> & {

package/dist/LinearSyntenyView/model.js

@@ -43,7 +43,8 @@ const model_1 = __importDefault(require("../LinearComparativeView/model"));
 const ExportSvgDialog = (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('./components/ExportSvgDialog'))));
 /**
  * #stateModel LinearSyntenyView
- * extends the `LinearComparativeView` base model
+ * extends
+ * - [LinearComparativeView](../linearcomparativeview)
  */
 function stateModelFactory(pluginManager) {
     return mobx_state_tree_1.types
@@ -84,6 +85,9 @@ function stateModelFactory(pluginManager) {
         },
     }))
         .actions(self => ({
+        /**
+         * #action
+         */
         async exportSvg(opts) {
             const { renderToSvg } = await Promise.resolve().then(() => __importStar(require('./svgcomponents/SVGLinearSyntenyView')));
             const html = await renderToSvg(self, opts);
@@ -148,6 +152,9 @@ function stateModelFactory(pluginManager) {
                     },
                 ];
             },
+            /**
+             * #method
+             */
             menuItems() {
                 return [
                     ...superMenuItems(),

package/dist/LinearSyntenyView/svgcomponents/SVGLinearSyntenyView.js

@@ -6,7 +6,7 @@ Object.defineProperty(exports, "__esModule", { value: true });
 exports.renderToSvg = void 0;
 const react_1 = __importDefault(require("react"));
 const material_1 = require("@mui/material");
-const server_1 = require("react-dom/server");
+const mobx_state_tree_1 = require("mobx-state-tree");
 const mobx_1 = require("mobx");
 const util_1 = require("@jbrowse/core/util");
 const tracks_1 = require("@jbrowse/core/util/tracks");
@@ -19,14 +19,14 @@ const drawSynteny_1 = require("../../LinearSyntenyDisplay/drawSynteny");
 async function renderToSvg(model, opts) {
     var _a;
     await (0, mobx_1.when)(() => model.initialized);
-    const { textHeight = 18, headerHeight = 30, rulerHeight = 30, fontSize = 13, trackLabels = 'offset', 
-    // eslint-disable-next-line @typescript-eslint/no-explicit-any
-    Wrapper = ({ children }) => react_1.default.createElement(react_1.default.Fragment, null, children), themeName = 'default', } = opts;
+    const { textHeight = 18, headerHeight = 30, rulerHeight = 30, fontSize = 13, trackLabels = 'offset', Wrapper = ({ children }) => react_1.default.createElement(react_1.default.Fragment, null, children), themeName = 'default', } = opts;
     const session = (0, util_1.getSession)(model);
     const theme = (_a = session.allThemes) === null || _a === void 0 ? void 0 : _a.call(session)[themeName];
     const { width, views, middleComparativeHeight: synH, tracks } = model;
     const shift = 50;
     const offset = headerHeight + rulerHeight;
+    // eslint-disable-next-line @typescript-eslint/no-explicit-any
+    const { createRootFn } = (0, mobx_state_tree_1.getRoot)(model);
     const heights = views.map(v => (0, plugin_linear_genome_view_1.totalHeight)(v.tracks, textHeight, trackLabels) + offset);
     const totalHeightSvg = (0, util_1.sum)(heights) + synH + 100;
     const displayResults = await Promise.all(views.map(async (view) => ({
@@ -62,7 +62,7 @@ async function renderToSvg(model, opts) {
     const w = width + trackLabelOffset;
     const t = (0, ui_1.createJBrowseTheme)(theme);
     // the xlink namespace is used for rendering <image> tag
-    return (0, server_1.renderToStaticMarkup)(react_1.default.createElement(material_1.ThemeProvider, { theme: (0, ui_1.createJBrowseTheme)(theme) },
+    return (0, util_1.renderToStaticMarkup)(react_1.default.createElement(material_1.ThemeProvider, { theme: (0, ui_1.createJBrowseTheme)(theme) },
         react_1.default.createElement(Wrapper, null,
             react_1.default.createElement("svg", { width: width, height: totalHeightSvg, xmlns: "http://www.w3.org/2000/svg", xmlnsXlink: "http://www.w3.org/1999/xlink", viewBox: [0, 0, w + shift * 2, totalHeightSvg].toString() },
                 react_1.default.createElement(SVGBackground_1.default, { width: w, height: totalHeightSvg, shift: shift }),
@@ -79,6 +79,6 @@ async function renderToSvg(model, opts) {
                     react_1.default.createElement("g", { transform: `translate(${trackLabelOffset})` },
                         react_1.default.createElement("text", { x: 0, fontSize: fontSize, fill: t.palette.text.primary }, views[1].assemblyNames.join(', ')),
                         react_1.default.createElement(plugin_linear_genome_view_1.SVGRuler, { model: displayResults[1].view, fontSize: fontSize })),
-                    react_1.default.createElement(plugin_linear_genome_view_1.SVGTracks, { textHeight: textHeight, trackLabels: trackLabels, fontSize: fontSize, model: displayResults[1].view, displayResults: displayResults[1].data, offset: offset, trackLabelOffset: trackLabelOffset }))))));
+                    react_1.default.createElement(plugin_linear_genome_view_1.SVGTracks, { textHeight: textHeight, trackLabels: trackLabels, fontSize: fontSize, model: displayResults[1].view, displayResults: displayResults[1].data, offset: offset, trackLabelOffset: trackLabelOffset }))))), createRootFn);
 }
 exports.renderToSvg = renderToSvg;

package/dist/SyntenyTrack/configSchema.js

@@ -4,6 +4,8 @@ const configuration_1 = require("@jbrowse/core/configuration");
 const models_1 = require("@jbrowse/core/pluggableElementTypes/models");
 /**
  * #config SyntenyTrack
+ * extends
+ * - [BaseTrack](../basetrack)
  */
 function x() { } // eslint-disable-line @typescript-eslint/no-unused-vars
 const configSchema = (pluginManager) => (0, configuration_1.ConfigurationSchema)('SyntenyTrack', {}, {

package/esm/LGVSyntenyDisplay/configSchemaF.d.ts

@@ -1,6 +1,8 @@
 import PluginManager from '@jbrowse/core/PluginManager';
 /**
  * #config LGVSyntenyDisplay
+ * extends config
+ * - [LinearPileupDisplay](../linearpileupdisplay)
  */
 declare function configSchemaF(pluginManager: PluginManager): import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
     defaultRendering: {

package/esm/LGVSyntenyDisplay/configSchemaF.js

@@ -2,6 +2,8 @@ import { ConfigurationSchema } from '@jbrowse/core/configuration';
 import { linearPileupDisplayConfigSchemaFactory } from '@jbrowse/plugin-alignments';
 /**
  * #config LGVSyntenyDisplay
+ * extends config
+ * - [LinearPileupDisplay](../linearpileupdisplay)
  */
 function configSchemaF(pluginManager) {
     return ConfigurationSchema('LGVSyntenyDisplay', {}, {

package/esm/LGVSyntenyDisplay/model.d.ts

@@ -2,8 +2,11 @@
 import { AnyConfigurationSchemaType } from '@jbrowse/core/configuration';
 /**
  * #stateModel LGVSyntenyDisplay
- * extends `LinearPileupDisplay`, displays location of "synteny" feature in a
- * plain LGV, allowing linking out to external synteny views
+ * displays location of "synteny" feature in a plain LGV, allowing linking out
+ * to external synteny views
+ *
+ * extends
+ * - [SharedLinearPileupDisplayMixin](../sharedlinearpileupdisplaymixin)
  */
 declare function stateModelFactory(schema: AnyConfigurationSchemaType): import("mobx-state-tree").IModelType<{
     id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
@@ -69,15 +72,15 @@ declare function stateModelFactory(schema: AnyConfigurationSchemaType): import("
         };
         fetchSizeLimit: {
             type: string;
-            defaultValue: number; /**
-             * #property
-             */
+            defaultValue: number;
             description: string;
         };
         height: {
             type: string;
             defaultValue: number;
-            description: string;
+            description: string; /**
+             * #method
+             */
         };
         mouseover: {
             type: string;
@@ -146,7 +149,9 @@ declare function stateModelFactory(schema: AnyConfigurationSchemaType): import("
         model: {
             id: string;
             type: string;
-            rpcDriverName: string | undefined;
+            rpcDriverName: string | undefined; /**
+             * #method
+             */
         } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
             rendererTypeName: string;
             error: unknown;
@@ -319,8 +324,14 @@ declare function stateModelFactory(schema: AnyConfigurationSchemaType): import("
 } & {
     afterAttach(): void;
 } & {
+    /**
+     * #method
+     */
     contextMenuItems(): import("@jbrowse/core/ui").MenuItem[];
 } & {
+    /**
+     * #method
+     */
     trackMenuItems(): (import("@jbrowse/core/ui").MenuDivider | import("@jbrowse/core/ui").MenuSubHeader | import("@jbrowse/core/ui").NormalMenuItem | import("@jbrowse/core/ui").CheckboxMenuItem | import("@jbrowse/core/ui").RadioMenuItem | import("@jbrowse/core/ui").SubMenuItem | {
         label: string;
         subMenu: {

package/esm/LGVSyntenyDisplay/model.js

@@ -6,8 +6,11 @@ import { types } from 'mobx-state-tree';
 const LaunchSyntenyViewDialog = lazy(() => import('./components/LaunchSyntenyViewDialog'));
 /**
  * #stateModel LGVSyntenyDisplay
- * extends `LinearPileupDisplay`, displays location of "synteny" feature in a
- * plain LGV, allowing linking out to external synteny views
+ * displays location of "synteny" feature in a plain LGV, allowing linking out
+ * to external synteny views
+ *
+ * extends
+ * - [SharedLinearPileupDisplayMixin](../sharedlinearpileupdisplaymixin)
  */
 function stateModelFactory(schema) {
     return types
@@ -24,6 +27,9 @@ function stateModelFactory(schema) {
         .views(self => {
         const superContextMenuItems = self.contextMenuItems;
         return {
+            /**
+             * #method
+             */
             contextMenuItems() {
                 const feature = self.contextMenuFeature;
                 return [
@@ -52,6 +58,9 @@ function stateModelFactory(schema) {
         .views(self => {
         const { trackMenuItems: superTrackMenuItems, colorSchemeSubMenuItems: superColorSchemeSubMenuItems, } = self;
         return {
+            /**
+             * #method
+             */
             trackMenuItems() {
                 return [
                     ...superTrackMenuItems(),
@@ -65,7 +74,8 @@ function stateModelFactory(schema) {
     })
         .actions(self => ({
         afterCreate() {
-            // use color by stand to help indicate inversions better on first load, otherwise use selected orientation
+            // use color by stand to help indicate inversions better on first load,
+            // otherwise use selected orientation
             if (self.colorBy) {
                 self.setColorScheme({ ...self.colorBy });
             }