@jbrowse/plugin-arc 2.17.0 → 2.18.0

package/dist/ArcRenderer/ArcRendering.d.ts

@@ -1,6 +1,6 @@
 import React from 'react';
-import { AnyConfigurationModel } from '@jbrowse/core/configuration';
-import { Feature, Region } from '@jbrowse/core/util';
+import type { AnyConfigurationModel } from '@jbrowse/core/configuration';
+import type { Feature, Region } from '@jbrowse/core/util';
 declare const ArcRendering: ({ features, config, regions, bpPerPx, height, exportSVG, displayModel, onFeatureClick, }: {
     features: Map<string, Feature>;
     config: AnyConfigurationModel;

package/dist/ArcRenderer/ArcRendering.js

@@ -27,7 +27,6 @@ const react_1 = __importStar(require("react"));
 const configuration_1 = require("@jbrowse/core/configuration");
 const util_1 = require("@jbrowse/core/util");
 const mobx_react_1 = require("mobx-react");
-// locals
 const ArcTooltip = (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('../ArcTooltip'))));
 function Arc({ selectedFeatureId, region, bpPerPx, config, height: displayHeight, feature, onFeatureClick, }) {
     const [isMouseOvered, setIsMouseOvered] = (0, react_1.useState)(false);
@@ -41,7 +40,6 @@ function Arc({ selectedFeatureId, region, bpPerPx, config, height: displayHeight
     const strokeWidth = (0, configuration_1.readConfObject)(config, 'thickness', { feature }) || 2;
     const height = Math.min((0, configuration_1.readConfObject)(config, 'height', { feature }) || 100, displayHeight);
     const ref = react_1.default.createRef();
-    // formula: https://en.wikipedia.org/wiki/B%C3%A9zier_curve#Cubic_B%C3%A9zier_curves
     const t = 0.5;
     const t1 = 1 - t;
     const textYCoord = 3 * (t1 * t1) * (t * height) + 3 * t1 * (t * t) * height;

package/dist/ArcRenderer/configSchema.d.ts

@@ -1,52 +1,34 @@
 declare const ArcRenderer: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
-    /**
-     * #slot
-     */
     color: {
         type: string;
         description: string;
         defaultValue: string;
         contextVariable: string[];
     };
-    /**
-     * #slot
-     */
     thickness: {
         type: string;
         description: string;
         defaultValue: string;
         contextVariable: string[];
     };
-    /**
-     * #slot
-     */
     label: {
         type: string;
         description: string;
         defaultValue: string;
         contextVariable: string[];
     };
-    /**
-     * #slot
-     */
     height: {
         type: string;
         description: string;
         defaultValue: string;
         contextVariable: string[];
     };
-    /**
-     * #slot
-     */
     caption: {
         type: string;
         description: string;
         defaultValue: string;
         contextVariable: string[];
     };
-    /**
-     * #slot
-     */
     displayMode: {
         type: string;
         defaultValue: string;

package/dist/ArcRenderer/configSchema.js

@@ -2,59 +2,38 @@
 Object.defineProperty(exports, "__esModule", { value: true });
 const configuration_1 = require("@jbrowse/core/configuration");
 const mobx_state_tree_1 = require("mobx-state-tree");
-/**
- * #config ArcRenderer
- */
-function x() { } // eslint-disable-line @typescript-eslint/no-unused-vars
+function x() { }
 const ArcRenderer = (0, configuration_1.ConfigurationSchema)('ArcRenderer', {
-    /**
-     * #slot
-     */
     color: {
         type: 'color',
         description: 'the color of the arcs',
         defaultValue: 'darkblue',
         contextVariable: ['feature'],
     },
-    /**
-     * #slot
-     */
     thickness: {
         type: 'number',
         description: 'the thickness of the arcs',
         defaultValue: `jexl:logThickness(feature,'score')`,
         contextVariable: ['feature'],
     },
-    /**
-     * #slot
-     */
     label: {
         type: 'string',
         description: 'the label to appear at the apex of the arcs',
         defaultValue: `jexl:get(feature,'score')`,
         contextVariable: ['feature'],
     },
-    /**
-     * #slot
-     */
     height: {
         type: 'number',
         description: 'the height of the arcs',
         defaultValue: `jexl:log10(get(feature,'end')-get(feature,'start'))*50`,
         contextVariable: ['feature'],
     },
-    /**
-     * #slot
-     */
     caption: {
         type: 'string',
         description: 'the caption to appear when hovering over any point on the arcs',
         defaultValue: `jexl:get(feature,'name')`,
         contextVariable: ['feature'],
     },
-    /**
-     * #slot
-     */
     displayMode: {
         type: 'enum',
         defaultValue: 'arcs',

package/dist/ArcRenderer/index.d.ts

@@ -1,2 +1,2 @@
-import PluginManager from '@jbrowse/core/PluginManager';
+import type PluginManager from '@jbrowse/core/PluginManager';
 export default function ArcRendererF(pluginManager: PluginManager): void;

package/dist/ArcRenderer/index.js

@@ -4,9 +4,9 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
 };
 Object.defineProperty(exports, "__esModule", { value: true });
 exports.default = ArcRendererF;
+const ArcRenderer_1 = __importDefault(require("./ArcRenderer"));
 const ArcRendering_1 = __importDefault(require("./ArcRendering"));
 const configSchema_1 = __importDefault(require("./configSchema"));
-const ArcRenderer_1 = __importDefault(require("./ArcRenderer"));
 function ArcRendererF(pluginManager) {
     pluginManager.addRendererType(() => new ArcRenderer_1.default({
         name: 'ArcRenderer',

package/dist/ArcTooltip.js

@@ -28,8 +28,8 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
 Object.defineProperty(exports, "__esModule", { value: true });
 const react_1 = __importStar(require("react"));
 const ui_1 = require("@jbrowse/core/ui");
-const mobx_react_1 = require("mobx-react");
 const BaseTooltip_1 = __importDefault(require("@jbrowse/core/ui/BaseTooltip"));
+const mobx_react_1 = require("mobx-react");
 const TooltipContents = react_1.default.forwardRef(function TooltipContents2({ message }, ref) {
     return (react_1.default.createElement("div", { ref: ref }, react_1.default.isValidElement(message) ? (message) : message ? (react_1.default.createElement(ui_1.SanitizedHTML, { html: String(message) })) : null));
 });

package/dist/LinearArcDisplay/configSchema.d.ts

@@ -1,11 +1,5 @@
-import PluginManager from '@jbrowse/core/PluginManager';
-/**
- * #config LinearArcDisplay
- */
+import type PluginManager from '@jbrowse/core/PluginManager';
 export declare function configSchemaFactory(pluginManager: PluginManager): import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
-    /**
-     * #slot
-     */
     renderer: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IAnyModelType, [undefined]>;
 }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
     maxFeatureScreenDensity: {

package/dist/LinearArcDisplay/configSchema.js

@@ -1,22 +1,13 @@
 "use strict";
 Object.defineProperty(exports, "__esModule", { value: true });
 exports.configSchemaFactory = configSchemaFactory;
-const mobx_state_tree_1 = require("mobx-state-tree");
 const configuration_1 = require("@jbrowse/core/configuration");
 const plugin_linear_genome_view_1 = require("@jbrowse/plugin-linear-genome-view");
-/**
- * #config LinearArcDisplay
- */
+const mobx_state_tree_1 = require("mobx-state-tree");
 function configSchemaFactory(pluginManager) {
     return (0, configuration_1.ConfigurationSchema)('LinearArcDisplay', {
-        /**
-         * #slot
-         */
         renderer: mobx_state_tree_1.types.optional(pluginManager.pluggableConfigSchemaType('renderer'), { type: 'ArcRenderer' }),
     }, {
-        /**
-         * #baseConfiguration
-         */
         baseConfiguration: plugin_linear_genome_view_1.baseLinearDisplayConfigSchema,
         explicitlyTyped: true,
     });

package/dist/LinearArcDisplay/index.d.ts

@@ -1,2 +1,2 @@
-import PluginManager from '@jbrowse/core/PluginManager';
+import type PluginManager from '@jbrowse/core/PluginManager';
 export default function LinearArcDisplayF(pluginManager: PluginManager): void;

package/dist/LinearArcDisplay/model.d.ts

@@ -1,9 +1,4 @@
-import { AnyConfigurationSchemaType } from '@jbrowse/core/configuration';
-/**
- * #stateModel LinearArcDisplay
- * extends
- * - [BaseLinearDisplay](../baselineardisplay)
- */
+import type { AnyConfigurationSchemaType } from '@jbrowse/core/configuration';
 export declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): import("mobx-state-tree").IModelType<{
     id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
     type: import("mobx-state-tree").ISimpleType<string>;
@@ -16,21 +11,12 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
 } & {
     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>;
+        region: import("mobx-state-tree").IType<import("@jbrowse/core/util").Region, import("@jbrowse/core/util").Region, import("@jbrowse/core/util").Region>;
         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;
+        stopToken: string | undefined;
         filled: boolean;
         reactElement: React.ReactElement | undefined;
         features: Map<string, import("@jbrowse/core/util").Feature> | undefined;
@@ -54,15 +40,9 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
         doReload(): void;
         afterAttach(): void;
         setStatus(message: string): void;
-        setLoading(abortController: AbortController): void;
+        setLoading(newStopToken: string): void;
         setMessage(messageText: string): void;
-        setRendered(props: {
-            reactElement: React.ReactElement;
-            features: Map<string, import("@jbrowse/core/util").Feature>;
-            layout: any;
-            maxHeightReached: boolean;
-            renderProps: any;
-        } | undefined): void;
+        setRendered(props: import("@jbrowse/plugin-linear-genome-view/src/BaseLinearDisplay/models/serverSideRenderedBlock").RenderedProps | undefined): void;
         setError(error: unknown): void;
         reload(): void;
         beforeDestroy(): void;
@@ -96,17 +76,8 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
         };
     }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "displayId">>;
 } & {
-    /**
-     * #property
-     */
     type: import("mobx-state-tree").ISimpleType<"LinearArcDisplay">;
-    /**
-     * #property
-     */
     configuration: AnyConfigurationSchemaType;
-    /**
-     * #property
-     */
     displayMode: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
 }, {
     rendererTypeName: string;
@@ -118,9 +89,7 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
             id: string;
             type: string;
             rpcDriverName: string | undefined;
-        } & import("mobx-state-tree/dist/internal" /**
-         * #getter
-         */).NonEmptyObject & {
+        } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
             rendererTypeName: string;
             error: unknown;
             message: string | undefined;
@@ -199,6 +168,7 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
     readonly regionTooLarge: boolean;
     readonly regionTooLargeReason: string;
 } & {
+    readonly statsReadyAndRegionNotTooLarge: boolean;
     regionCannotBeRenderedText(_region: import("@jbrowse/core/util").Region): "" | "Force load to see features";
     regionCannotBeRendered(_region: import("@jbrowse/core/util").Region): import("react").JSX.Element | null;
 } & {
@@ -236,27 +206,12 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
     renderSvg(opts: import("@jbrowse/plugin-linear-genome-view").ExportSvgDisplayOptions): Promise<import("react").JSX.Element>;
     afterAttach(): void;
 } & {
-    /**
-     * #getter
-     */
     readonly blockType: string;
-    /**
-     * #getter
-     */
     readonly renderDelay: number;
-    /**
-     * #getter
-     */
     readonly rendererTypeName: any;
 } & {
-    /**
-     * #getter
-     */
     readonly displayModeSetting: any;
 } & {
-    /**
-     * #getter
-     */
     readonly rendererConfig: {
         [x: string]: any;
     } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
@@ -269,19 +224,10 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
         } & import("mobx-state-tree").IStateTreeNode<AnyConfigurationSchemaType>);
     } & import("mobx-state-tree").IStateTreeNode<AnyConfigurationSchemaType>;
 } & {
-    /**
-     * #method
-     */
     renderProps(): any;
 } & {
-    /**
-     * #action
-     */
     setDisplayMode(flag: string): void;
 } & {
-    /**
-     * #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: {
@@ -305,21 +251,12 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
 } & {
     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>;
+        region: import("mobx-state-tree").IType<import("@jbrowse/core/util").Region, import("@jbrowse/core/util").Region, import("@jbrowse/core/util").Region>;
         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;
+        stopToken: string | undefined;
         filled: boolean;
         reactElement: React.ReactElement | undefined;
         features: Map<string, import("@jbrowse/core/util").Feature> | undefined;
@@ -343,15 +280,9 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
         doReload(): void;
         afterAttach(): void;
         setStatus(message: string): void;
-        setLoading(abortController: AbortController): void;
+        setLoading(newStopToken: string): void;
         setMessage(messageText: string): void;
-        setRendered(props: {
-            reactElement: React.ReactElement;
-            features: Map<string, import("@jbrowse/core/util").Feature>;
-            layout: any;
-            maxHeightReached: boolean;
-            renderProps: any;
-        } | undefined): void;
+        setRendered(props: import("@jbrowse/plugin-linear-genome-view/src/BaseLinearDisplay/models/serverSideRenderedBlock").RenderedProps | undefined): void;
         setError(error: unknown): void;
         reload(): void;
         beforeDestroy(): void;
@@ -388,8 +319,8 @@ export declare function stateModelFactory(configSchema: AnyConfigurationSchemaTy
     type: string;
     id: string;
     configuration: import("mobx-state-tree").ModelSnapshotType<Record<string, any>>;
-    heightPreConfig: number | undefined;
     rpcDriverName: string | undefined;
+    heightPreConfig: number | undefined;
     userBpPerPxLimit: number | undefined;
     userByteSizeLimit: number | undefined;
 } & import("mobx-state-tree")._NotCustomized>;

package/dist/LinearArcDisplay/model.js

@@ -2,63 +2,34 @@
 Object.defineProperty(exports, "__esModule", { value: true });
 exports.stateModelFactory = stateModelFactory;
 const configuration_1 = require("@jbrowse/core/configuration");
-const mobx_state_tree_1 = require("mobx-state-tree");
-const plugin_linear_genome_view_1 = require("@jbrowse/plugin-linear-genome-view");
 const util_1 = require("@jbrowse/core/util");
-/**
- * #stateModel LinearArcDisplay
- * extends
- * - [BaseLinearDisplay](../baselineardisplay)
- */
+const plugin_linear_genome_view_1 = require("@jbrowse/plugin-linear-genome-view");
+const mobx_state_tree_1 = require("mobx-state-tree");
 function stateModelFactory(configSchema) {
     return mobx_state_tree_1.types
         .compose('LinearArcDisplay', plugin_linear_genome_view_1.BaseLinearDisplay, mobx_state_tree_1.types.model({
-        /**
-         * #property
-         */
         type: mobx_state_tree_1.types.literal('LinearArcDisplay'),
-        /**
-         * #property
-         */
         configuration: (0, configuration_1.ConfigurationReference)(configSchema),
-        /**
-         * #property
-         */
         displayMode: mobx_state_tree_1.types.maybe(mobx_state_tree_1.types.string),
     }))
         .views(self => ({
-        /**
-         * #getter
-         */
         get blockType() {
             return 'staticBlocks';
         },
-        /**
-         * #getter
-         */
         get renderDelay() {
             return 500;
         },
-        /**
-         * #getter
-         */
         get rendererTypeName() {
             return self.configuration.renderer.type;
         },
     }))
         .views(self => ({
-        /**
-         * #getter
-         */
         get displayModeSetting() {
             var _a;
             return (_a = self.displayMode) !== null && _a !== void 0 ? _a : (0, configuration_1.getConf)(self, ['renderer', 'displayMode']);
         },
     }))
         .views(self => ({
-        /**
-         * #getter
-         */
         get rendererConfig() {
             const configBlob = (0, configuration_1.getConf)(self, ['renderer']) || {};
             const config = configBlob;
@@ -71,9 +42,6 @@ function stateModelFactory(configSchema) {
         .views(self => {
         const { renderProps: superRenderProps } = self;
         return {
-            /**
-             * #method
-             */
             renderProps() {
                 return {
                     ...superRenderProps(),
@@ -85,9 +53,6 @@ function stateModelFactory(configSchema) {
         };
     })
         .actions(self => ({
-        /**
-         * #action
-         */
         setDisplayMode(flag) {
             self.displayMode = flag;
         },
@@ -95,9 +60,6 @@ function stateModelFactory(configSchema) {
         .views(self => {
         const superMenuItems = self.trackMenuItems;
         return {
-            /**
-             * #method
-             */
             trackMenuItems() {
                 return [
                     ...superMenuItems(),

package/dist/LinearPairedArcDisplay/afterAttach.d.ts

@@ -1,2 +1,2 @@
-import { IAnyStateTreeNode } from 'mobx-state-tree';
+import type { IAnyStateTreeNode } from 'mobx-state-tree';
 export declare function doAfterAttach<T extends IAnyStateTreeNode>(self: T): void;

package/dist/LinearPairedArcDisplay/afterAttach.js

@@ -1,8 +1,8 @@
 "use strict";
 Object.defineProperty(exports, "__esModule", { value: true });
 exports.doAfterAttach = doAfterAttach;
-const util_1 = require("./util");
 const fetchChains_1 = require("./fetchChains");
+const util_1 = require("./util");
 function doAfterAttach(self) {
     (0, util_1.createAutorun)(self, async () => {
         await (0, fetchChains_1.fetchChains)(self);

package/dist/LinearPairedArcDisplay/components/Arcs.d.ts

@@ -1,5 +1,5 @@
 import React from 'react';
-import { LinearArcDisplayModel } from '../model';
+import type { LinearArcDisplayModel } from '../model';
 declare const Arcs: ({ model, exportSVG, }: {
     model: LinearArcDisplayModel;
     exportSVG?: boolean;

package/dist/LinearPairedArcDisplay/components/Arcs.js

@@ -24,9 +24,9 @@ var __importStar = (this && this.__importStar) || function (mod) {
 };
 Object.defineProperty(exports, "__esModule", { value: true });
 const react_1 = __importStar(require("react"));
-const mobx_react_1 = require("mobx-react");
-const util_1 = require("@jbrowse/core/util");
 const configuration_1 = require("@jbrowse/core/configuration");
+const util_1 = require("@jbrowse/core/util");
+const mobx_react_1 = require("mobx-react");
 const util_2 = require("./util");
 const ArcTooltip = (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('../../ArcTooltip'))));
 const Arc = (0, mobx_react_1.observer)(function ({ model, feature, alt, assembly, view, }) {

package/dist/LinearPairedArcDisplay/components/BaseDisplayComponent.d.ts

@@ -1,5 +1,5 @@
 import React from 'react';
-import { LinearArcDisplayModel } from '../model';
+import type { LinearArcDisplayModel } from '../model';
 declare const BaseDisplayComponent: ({ model, children, }: {
     model: LinearArcDisplayModel;
     children?: React.ReactNode;

package/dist/LinearPairedArcDisplay/components/BaseDisplayComponent.js

@@ -27,15 +27,14 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
 };
 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");
 const plugin_linear_genome_view_1 = require("@jbrowse/plugin-linear-genome-view");
-const mui_1 = require("tss-react/mui");
-const mobx_react_1 = require("mobx-react");
-// icons
 const Refresh_1 = __importDefault(require("@mui/icons-material/Refresh"));
 const Report_1 = __importDefault(require("@mui/icons-material/Report"));
-const util_1 = require("@jbrowse/core/util");
+const material_1 = require("@mui/material");
+const mobx_react_1 = require("mobx-react");
+const mui_1 = require("tss-react/mui");
 const ErrorMessageStackTraceDialog = (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('@jbrowse/core/ui/ErrorMessageStackTraceDialog'))));
 const useStyles = (0, mui_1.makeStyles)()(theme => ({
     loading: {

package/dist/LinearPairedArcDisplay/components/ReactComponent.d.ts

@@ -1,5 +1,5 @@
 import React from 'react';
-import { LinearArcDisplayModel } from '../model';
+import type { LinearArcDisplayModel } from '../model';
 declare const LinearArcReactComponent: ({ model, exportSVG, }: {
     model: LinearArcDisplayModel;
     exportSVG?: boolean;

package/dist/LinearPairedArcDisplay/components/ReactComponent.js

@@ -5,8 +5,8 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
 Object.defineProperty(exports, "__esModule", { value: true });
 const react_1 = __importDefault(require("react"));
 const mobx_react_1 = require("mobx-react");
-const BaseDisplayComponent_1 = __importDefault(require("./BaseDisplayComponent"));
 const Arcs_1 = __importDefault(require("./Arcs"));
+const BaseDisplayComponent_1 = __importDefault(require("./BaseDisplayComponent"));
 const LinearArcReactComponent = (0, mobx_react_1.observer)(function ({ model, exportSVG, }) {
     return (react_1.default.createElement(BaseDisplayComponent_1.default, { model: model },
         react_1.default.createElement(Arcs_1.default, { model: model, exportSVG: exportSVG })));

package/dist/LinearPairedArcDisplay/components/util.d.ts

@@ -1,4 +1,4 @@
-import { Feature } from '@jbrowse/core/util';
+import type { Feature } from '@jbrowse/core/util';
 export declare function makeFeaturePair(feature: Feature, alt?: string): {
     k1: {
         refName: string;

package/dist/LinearPairedArcDisplay/components/util.js

@@ -17,19 +17,13 @@ function makeFeaturePair(feature, alt) {
     let mateStart = 0;
     let joinDirection = 0;
     let mateDirection = 0;
-    // one sided bracket used, because there could be <INS:ME> and we just check
-    // startswith below
     const symbolicAlleles = ['<TRA', '<DEL', '<INV', '<INS', '<DUP', '<CNV'];
     if (symbolicAlleles.some(a => alt === null || alt === void 0 ? void 0 : alt.startsWith(a))) {
-        // END is defined to be a single value, not an array. CHR2 not defined in
-        // VCF spec, but should be similar
         const info = feature.get('INFO');
         const e = (_b = (_a = info === null || info === void 0 ? void 0 : info.END) === null || _a === void 0 ? void 0 : _a[0]) !== null && _b !== void 0 ? _b : end;
         mateRefName = (_d = (_c = info === null || info === void 0 ? void 0 : info.CHR2) === null || _c === void 0 ? void 0 : _c[0]) !== null && _d !== void 0 ? _d : refName;
         mateEnd = e;
         mateStart = e - 1;
-        // re-adjust the arc to be from start to end of feature by re-assigning end
-        // to the 'mate'
         end = start + 1;
     }
     else if (bnd === null || bnd === void 0 ? void 0 : bnd.MatePosition) {

package/dist/LinearPairedArcDisplay/configSchema.d.ts

@@ -1,10 +1,4 @@
-/**
- * #config LinearPairedArcDisplay
- */
 export declare function configSchemaFactory(): import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
-    /**
-     * #slot
-     */
     color: {
         type: string;
         description: string;

package/dist/LinearPairedArcDisplay/configSchema.js

@@ -3,14 +3,8 @@ Object.defineProperty(exports, "__esModule", { value: true });
 exports.configSchemaFactory = configSchemaFactory;
 const configuration_1 = require("@jbrowse/core/configuration");
 const plugin_linear_genome_view_1 = require("@jbrowse/plugin-linear-genome-view");
-/**
- * #config LinearPairedArcDisplay
- */
 function configSchemaFactory() {
     return (0, configuration_1.ConfigurationSchema)('LinearPairedArcDisplay', {
-        /**
-         * #slot
-         */
         color: {
             type: 'color',
             description: 'the color of the arcs',
@@ -18,9 +12,6 @@ function configSchemaFactory() {
             contextVariable: ['feature', 'alt'],
         },
     }, {
-        /**
-         * #baseConfiguration
-         */
         baseConfiguration: plugin_linear_genome_view_1.baseLinearDisplayConfigSchema,
         explicitlyTyped: true,
     });

package/dist/LinearPairedArcDisplay/fetchChains.d.ts

@@ -1,4 +1,4 @@
-import { LinearArcDisplayModel } from './model';
+import type { LinearArcDisplayModel } from './model';
 export interface ReducedFeature {
     name: string;
     strand: number;