@jbrowse/plugin-linear-comparative-view 2.16.1 → 2.18.0

package/esm/LinearSyntenyDisplay/drawSynteny.js

@@ -1,6 +1,6 @@
 import { doesIntersect2, getContainingView } from '@jbrowse/core/util';
 import { draw, drawMatchSimple } from './components/util';
-export const MAX_COLOR_RANGE = 255 * 255 * 255; // max color range
+export const MAX_COLOR_RANGE = 255 * 255 * 255;
 function makeColor(idx) {
     const r = Math.floor(idx / (255 * 255)) % 255;
     const g = Math.floor(idx / 255) % 255;
@@ -34,8 +34,6 @@ export function drawRef(model, ctx1, ctx3) {
     ctx1.beginPath();
     const offsets = view.views.map(v => v.offsetPx);
     const unitMultiplier = Math.floor(MAX_COLOR_RANGE / featPositions.length);
-    // this loop is optimized to draw many thin lines with a single ctx.stroke
-    // call, a separate loop below draws larger boxes
     ctx1.fillStyle = colorMap.M;
     ctx1.strokeStyle = colorMap.M;
     for (const { p11, p12, p21, p22 } of featPositions) {
@@ -48,8 +46,6 @@ export function drawRef(model, ctx1, ctx3) {
         const y1 = 0;
         const y2 = height;
         const mid = (y2 - y1) / 2;
-        // drawing a line if the results are thin results in much less pixellation
-        // than filling in a thin polygon
         if (l1 <= lineLimit &&
             l2 <= lineLimit &&
             x21 < width + oobLimit &&
@@ -64,8 +60,6 @@ export function drawRef(model, ctx1, ctx3) {
         }
     }
     ctx1.stroke();
-    // this loop only draws small lines as a polyline, the polyline calls
-    // ctx.stroke once is much more efficient than calling stroke() many times
     ctx1.fillStyle = colorMap.M;
     ctx1.strokeStyle = colorMap.M;
     for (const { p11, p12, p21, p22, f, cigar } of featPositions) {
@@ -85,17 +79,12 @@ export function drawRef(model, ctx1, ctx3) {
             const s1 = f.get('strand');
             const k1 = s1 === -1 ? x12 : x11;
             const k2 = s1 === -1 ? x11 : x12;
-            // rev1/rev2 flip the direction of the CIGAR drawing in horizontally flipped
-            // modes. somewhat heuristically determined, but tested for
             const rev1 = k1 < k2 ? 1 : -1;
             const rev2 = (x21 < x22 ? 1 : -1) * s1;
-            // cx1/cx2 are the current x positions on top and bottom rows
             let cx1 = k1;
             let cx2 = s1 === -1 ? x22 : x21;
             if (cigar.length && drawCIGAR) {
-                // continuingFlag skips drawing commands on very small CIGAR features
                 let continuingFlag = false;
-                // px1/px2 are the previous x positions on the top and bottom rows
                 let px1 = 0;
                 let px2 = 0;
                 const unitMultiplier2 = Math.floor(MAX_COLOR_RANGE / cigar.length);
@@ -116,17 +105,11 @@ export function drawRef(model, ctx1, ctx3) {
                     else if (op === 'D' || op === 'N') {
                         cx1 += d1 * rev1;
                     }
-                    // eslint-disable-next-line @typescript-eslint/no-unnecessary-condition
                     else if (op === 'I') {
                         cx2 += d2 * rev2;
                     }
-                    // check that we are even drawing in view here, e.g. that all
-                    // points are not all less than 0 or greater than width
                     if (!(Math.max(px1, px2, cx1, cx2) < 0 ||
                         Math.min(px1, px2, cx1, cx2) > width)) {
-                        // if it is a small feature and not the last element of the
-                        // CIGAR (which could skip rendering it entire if we did turn
-                        // it on), then turn on continuing flag
                         const isNotLast = j < cigar.length - 2;
                         if (Math.abs(cx1 - px1) <= 1 &&
                             Math.abs(cx2 - px2) <= 1 &&
@@ -134,9 +117,6 @@ export function drawRef(model, ctx1, ctx3) {
                             continuingFlag = true;
                         }
                         else {
-                            // allow rendering the dominant color when using continuing
-                            // flag if the last element of continuing was a large
-                            // feature, else just use match
                             ctx1.fillStyle =
                                 colorMap[(continuingFlag && d1 > 1) || d2 > 1 ? op : 'M'];
                             continuingFlag = false;
@@ -157,7 +137,6 @@ export function drawRef(model, ctx1, ctx3) {
             }
         }
     }
-    // draw click map
     const ctx2 = (_a = model.clickMapCanvas) === null || _a === void 0 ? void 0 : _a.getContext('2d');
     if (!ctx2) {
         return;
@@ -168,7 +147,6 @@ export function drawRef(model, ctx1, ctx3) {
         const feature = featPositions[i];
         const idx = i * unitMultiplier + 1;
         ctx2.fillStyle = makeColor(idx);
-        // too many click map false positives with colored stroked lines
         drawMatchSimple({
             cb: ctx => {
                 ctx.fill();

package/esm/LinearSyntenyDisplay/index.d.ts

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

package/esm/LinearSyntenyDisplay/index.js

@@ -1,8 +1,7 @@
+import { lazy } from 'react';
 import DisplayType from '@jbrowse/core/pluggableElementTypes/DisplayType';
-// locals
 import configSchemaF from './configSchemaF';
 import stateModelFactory from './model';
-import { lazy } from 'react';
 export default function LinearSyntenyDisplayF(pluginManager) {
     pluginManager.addDisplayType(() => {
         const configSchema = configSchemaF(pluginManager);

package/esm/LinearSyntenyDisplay/model.d.ts

@@ -1,6 +1,6 @@
-import { Instance } from 'mobx-state-tree';
-import { AnyConfigurationSchemaType } from '@jbrowse/core/configuration';
-import { Feature } from '@jbrowse/core/util';
+import type { AnyConfigurationSchemaType } from '@jbrowse/core/configuration';
+import type { Feature } from '@jbrowse/core/util';
+import type { Instance } from 'mobx-state-tree';
 interface Pos {
     offsetPx: number;
 }
@@ -12,11 +12,6 @@ export interface FeatPos {
     f: Feature;
     cigar: string[];
 }
-/**
- * #stateModel LinearSyntenyDisplay
- * extends
- * - [LinearComparativeDisplay](../linearcomparativedisplay)
- */
 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>;
@@ -25,13 +20,7 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
     type: import("mobx-state-tree").ISimpleType<"LinearComparativeDisplay">;
     configuration: AnyConfigurationSchemaType;
 } & {
-    /**
-     * #property
-     */
     type: import("mobx-state-tree").ISimpleType<"LinearSyntenyDisplay">;
-    /**
-     * #property
-     */
     configuration: AnyConfigurationSchemaType;
 }, {
     rendererTypeName: string;
@@ -92,7 +81,7 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
     setRpcDriverName(rpcDriverName: string): void;
     reload(): void;
 } & {
-    renderInProgress: AbortController | undefined;
+    renderInProgress: string | undefined;
     features: Feature[] | undefined;
     message: string | undefined;
 } & {
@@ -113,12 +102,7 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
                     setSubschema(slotName: string, data: Record<string, unknown>): Record<string, unknown> | ({
                         [x: string]: any;
                     } & import("mobx-state-tree/dist/internal").NonEmptyObject & any & import("mobx-state-tree").IStateTreeNode<AnyConfigurationSchemaType>);
-                } & import("mobx-state-tree" /**
-                 * #volatile
-                 * canvas for drawing mouseover shading this is separate from the other
-                 * code for speed: don't have to redraw entire canvas to do a feature's
-                 * mouseover shading
-                 */).IStateTreeNode<AnyConfigurationSchemaType>);
+                } & import("mobx-state-tree").IStateTreeNode<AnyConfigurationSchemaType>);
             } & import("mobx-state-tree").IStateTreeNode<AnyConfigurationSchemaType>;
         } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
             rendererTypeName: string;
@@ -179,7 +163,7 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
             setRpcDriverName(rpcDriverName: string): void;
             reload(): void;
         } & {
-            renderInProgress: AbortController | undefined;
+            renderInProgress: string | undefined;
             features: Feature[] | undefined;
             message: string | undefined;
         } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
@@ -248,14 +232,14 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
             setRpcDriverName(rpcDriverName: string): void;
             reload(): void;
         } & {
-            renderInProgress: AbortController | undefined;
+            renderInProgress: string | undefined;
             features: Feature[] | undefined;
             message: string | undefined;
         }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
         highResolutionScaling: number;
     };
 } & {
-    setLoading(abortController: AbortController): void;
+    setLoading(newStopToken: string): void;
     setMessage(messageText: string): void;
     setRendered(args?: {
         features: Feature[];
@@ -264,106 +248,28 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
 } & {
     afterAttach(): void;
 } & {
-    /**
-     * #volatile
-     * canvas used for drawing visible screen
-     */
     mainCanvas: HTMLCanvasElement | null;
-    /**
-     * #volatile
-     * canvas used for drawing click map with feature ids this renders a
-     * unique color per alignment, so that it can be re-traced after a
-     * feature click with getImageData at that pixel
-     */
     clickMapCanvas: HTMLCanvasElement | null;
-    /**
-     * #volatile
-     * canvas used for drawing click map with cigar data this can show if you
-     * are mousing over a insertion/deletion. it is similar in purpose to the
-     * clickMapRef but was not feasible to pack this into the clickMapRef
-     */
     cigarClickMapCanvas: HTMLCanvasElement | null;
-    /**
-     * #volatile
-     * canvas for drawing mouseover shading this is separate from the other
-     * code for speed: don't have to redraw entire canvas to do a feature's
-     * mouseover shading
-     */
     mouseoverCanvas: HTMLCanvasElement | null;
-    /**
-     * #volatile
-     * assigned by reaction
-     */
     featPositions: FeatPos[];
-    /**
-     * #volatile
-     * currently mouse'd over feature
-     */
     mouseoverId: string | undefined;
-    /**
-     * #volatile
-     * currently click'd over feature
-     */
     clickId: string | undefined;
-    /**
-     * #volatile
-     * currently mouseover'd CIGAR subfeature
-     */
     cigarMouseoverId: number;
 } & {
-    /**
-     * #action
-     */
     setFeatPositions(arg: FeatPos[]): void;
-    /**
-     * #action
-     */
     setMainCanvasRef(ref: HTMLCanvasElement | null): void;
-    /**
-     * #action
-     */
     setClickMapCanvasRef(ref: HTMLCanvasElement | null): void;
-    /**
-     * #action
-     */
     setCigarClickMapCanvasRef(ref: HTMLCanvasElement | null): void;
-    /**
-     * #action
-     */
     setMouseoverCanvasRef(ref: HTMLCanvasElement | null): void;
-    /**
-     * #action
-     */
     setMouseoverId(arg?: string): void;
-    /**
-     * #action
-     */
     setCigarMouseoverId(arg: number): void;
-    /**
-     * #action
-     */
     setClickId(arg?: string): void;
 } & {
-    /**
-     * #getter
-     */
     readonly adapterConfig: any;
-    /**
-     * #getter
-     */
     readonly trackIds: string[];
-    /**
-     * #getter
-     */
     readonly numFeats: number;
-    /**
-     * #getter
-     * used for synteny svg rendering
-     */
     readonly ready: boolean;
-    /**
-     * #getter
-     */
     readonly featMap: {
         [k: string]: FeatPos;
     };

package/esm/LinearSyntenyDisplay/model.js

@@ -1,126 +1,49 @@
+import { ConfigurationReference, getConf } from '@jbrowse/core/configuration';
 import { types } from 'mobx-state-tree';
-import { getConf, ConfigurationReference, } from '@jbrowse/core/configuration';
-// locals
 import baseModelFactory from '../LinearComparativeDisplay/stateModelFactory';
-/**
- * #stateModel LinearSyntenyDisplay
- * extends
- * - [LinearComparativeDisplay](../linearcomparativedisplay)
- */
 function stateModelFactory(configSchema) {
     return types
         .compose('LinearSyntenyDisplay', baseModelFactory(configSchema), types.model({
-        /**
-         * #property
-         */
         type: types.literal('LinearSyntenyDisplay'),
-        /**
-         * #property
-         */
         configuration: ConfigurationReference(configSchema),
     }))
         .volatile(() => ({
-        /**
-         * #volatile
-         * canvas used for drawing visible screen
-         */
         mainCanvas: null,
-        /**
-         * #volatile
-         * canvas used for drawing click map with feature ids this renders a
-         * unique color per alignment, so that it can be re-traced after a
-         * feature click with getImageData at that pixel
-         */
         clickMapCanvas: null,
-        /**
-         * #volatile
-         * canvas used for drawing click map with cigar data this can show if you
-         * are mousing over a insertion/deletion. it is similar in purpose to the
-         * clickMapRef but was not feasible to pack this into the clickMapRef
-         */
         cigarClickMapCanvas: null,
-        /**
-         * #volatile
-         * canvas for drawing mouseover shading this is separate from the other
-         * code for speed: don't have to redraw entire canvas to do a feature's
-         * mouseover shading
-         */
         mouseoverCanvas: null,
-        /**
-         * #volatile
-         * assigned by reaction
-         */
         featPositions: [],
-        /**
-         * #volatile
-         * currently mouse'd over feature
-         */
         mouseoverId: undefined,
-        /**
-         * #volatile
-         * currently click'd over feature
-         */
         clickId: undefined,
-        /**
-         * #volatile
-         * currently mouseover'd CIGAR subfeature
-         */
         cigarMouseoverId: -1,
     }))
         .actions(self => ({
-        /**
-         * #action
-         */
         setFeatPositions(arg) {
             self.featPositions = arg;
         },
-        /**
-         * #action
-         */
         setMainCanvasRef(ref) {
             self.mainCanvas = ref;
         },
-        /**
-         * #action
-         */
         setClickMapCanvasRef(ref) {
             self.clickMapCanvas = ref;
         },
-        /**
-         * #action
-         */
         setCigarClickMapCanvasRef(ref) {
             self.cigarClickMapCanvas = ref;
         },
-        /**
-         * #action
-         */
         setMouseoverCanvasRef(ref) {
             self.mouseoverCanvas = ref;
         },
-        /**
-         * #action
-         */
         setMouseoverId(arg) {
             self.mouseoverId = arg;
         },
-        /**
-         * #action
-         */
         setCigarMouseoverId(arg) {
             self.cigarMouseoverId = arg;
         },
-        /**
-         * #action
-         */
         setClickId(arg) {
             self.clickId = arg;
         },
     }))
         .views(self => ({
-        /**
-         * #getter
-         */
         get adapterConfig() {
             return {
                 name: self.parentTrack.configuration.adapter.type,
@@ -128,35 +51,21 @@ function stateModelFactory(configSchema) {
                 ...getConf(self.parentTrack, 'adapter'),
             };
         },
-        /**
-         * #getter
-         */
         get trackIds() {
             return getConf(self, 'trackIds');
         },
-        /**
-         * #getter
-         */
         get numFeats() {
             return self.featPositions.length;
         },
-        /**
-         * #getter
-         * used for synteny svg rendering
-         */
         get ready() {
             return this.numFeats > 0;
         },
-        /**
-         * #getter
-         */
         get featMap() {
             return Object.fromEntries(self.featPositions.map(f => [f.f.id(), f]));
         },
     }))
         .actions(self => ({
         afterAttach() {
-            // eslint-disable-next-line @typescript-eslint/no-floating-promises
             ;
             (async () => {
                 try {

package/esm/LinearSyntenyView/components/ExportSvgDialog.d.ts

@@ -1,5 +1,5 @@
 import React from 'react';
-import { ExportSvgOptions } from '../model';
+import type { ExportSvgOptions } from '../model';
 export default function ExportSvgDialog({ model, handleClose, }: {
     model: {
         exportSvg(opts: ExportSvgOptions): Promise<void>;

package/esm/LinearSyntenyView/components/ExportSvgDialog.js

@@ -1,7 +1,7 @@
 import React, { useState } from 'react';
-import { Button, Checkbox, CircularProgress, DialogActions, DialogContent, FormControlLabel, MenuItem, TextField, Typography, } from '@mui/material';
 import { Dialog, ErrorMessage } from '@jbrowse/core/ui';
 import { getSession, useLocalStorage } from '@jbrowse/core/util';
+import { Button, Checkbox, CircularProgress, DialogActions, DialogContent, FormControlLabel, MenuItem, TextField, Typography, } from '@mui/material';
 function LoadingMessage() {
     return (React.createElement("div", null,
         React.createElement(CircularProgress, { size: 20, style: { marginRight: 20 } }),
@@ -39,9 +39,7 @@ export default function ExportSvgDialog({ model, handleClose, }) {
             React.createElement("br", null),
             session.allThemes ? (React.createElement(TextField2, { select: true, label: "Theme", variant: "outlined", value: themeName, onChange: event => {
                     setThemeName(event.target.value);
-                } }, Object.entries(session.allThemes()).map(([key, val]) => (React.createElement(MenuItem, { key: key, value: key }, 
-            // @ts-expect-error
-            val.name || '(Unknown name)'))))) : null,
+                } }, Object.entries(session.allThemes()).map(([key, val]) => (React.createElement(MenuItem, { key: key, value: key }, val.name || '(Unknown name)'))))) : null,
             offscreenCanvas ? (React.createElement(FormControlLabel, { control: React.createElement(Checkbox, { checked: rasterizeLayers, onChange: () => {
                         setRasterizeLayers(val => !val);
                     } }), label: "Rasterize canvas based tracks? File may be much larger if this is turned off" })) : (React.createElement(Typography, null, "Note: rasterizing layers not yet supported in this browser, so SVG size may be large"))),

package/esm/LinearSyntenyView/components/Icons.d.ts

@@ -1,4 +1,4 @@
 import React from 'react';
-import { SvgIconProps } from '@mui/material';
+import type { SvgIconProps } from '@mui/material';
 export declare function Curves(props: SvgIconProps): React.JSX.Element;
 export declare function StraightLines(props: SvgIconProps): React.JSX.Element;

package/esm/LinearSyntenyView/components/ImportForm/AddCustomTrack.d.ts

@@ -1,6 +1,6 @@
 import React from 'react';
-import { SnapshotIn } from 'mobx-state-tree';
-import { AnyConfigurationModel } from '@jbrowse/core/configuration';
+import type { AnyConfigurationModel } from '@jbrowse/core/configuration';
+import type { SnapshotIn } from 'mobx-state-tree';
 type Conf = SnapshotIn<AnyConfigurationModel>;
 declare const ImportCustomTrack: ({ assembly1, assembly2, setUserOpenedSyntenyTrack, }: {
     assembly1: string;

package/esm/LinearSyntenyView/components/ImportForm/AddCustomTrack.js

@@ -1,6 +1,6 @@
-import React, { useState, useEffect } from 'react';
-import { FormControlLabel, Grid, Paper, Radio, RadioGroup, Typography, } from '@mui/material';
+import React, { useEffect, useState } from 'react';
 import { ErrorMessage, FileSelector } from '@jbrowse/core/ui';
+import { FormControlLabel, Grid, Paper, Radio, RadioGroup, Typography, } from '@mui/material';
 import { observer } from 'mobx-react';
 import { basename, extName, getName, stripGz } from './util';
 function getAdapter({ radioOption, assembly1, assembly2, fileLocation, indexFileLocation, bed1Location, bed2Location, }) {

package/esm/LinearSyntenyView/components/ImportForm/LinearSyntenyImportForm.d.ts

@@ -1,5 +1,5 @@
 import React from 'react';
-import { LinearSyntenyViewModel } from '../../model';
+import type { LinearSyntenyViewModel } from '../../model';
 declare const LinearSyntenyViewImportForm: ({ model, }: {
     model: LinearSyntenyViewModel;
 }) => React.JSX.Element;

package/esm/LinearSyntenyView/components/ImportForm/LinearSyntenyImportForm.js

@@ -1,14 +1,13 @@
 import React, { useState } from 'react';
-import { Button, Container, IconButton } from '@mui/material';
-import { makeStyles } from 'tss-react/mui';
-import { observer } from 'mobx-react';
+import { AssemblySelector, ErrorMessage } from '@jbrowse/core/ui';
 import { getSession, isSessionWithAddTracks, notEmpty, } from '@jbrowse/core/util';
-import { ErrorMessage, AssemblySelector } from '@jbrowse/core/ui';
-// icons
-import CloseIcon from '@mui/icons-material/Close';
 import ArrowForwardIosIcon from '@mui/icons-material/ArrowForwardIos';
-import TrackSelector from './TrackSelectorUtil';
+import CloseIcon from '@mui/icons-material/Close';
+import { Button, Container, IconButton } from '@mui/material';
+import { observer } from 'mobx-react';
+import { makeStyles } from 'tss-react/mui';
 import Spacer from './Spacer';
+import TrackSelector from './TrackSelectorUtil';
 const useStyles = makeStyles()(theme => ({
     importFormContainer: {
         padding: theme.spacing(4),
@@ -90,7 +89,6 @@ const LinearSyntenyViewImportForm = observer(function ({ model, }) {
                             ]);
                         } }, "Add row"),
                     React.createElement(Button, { className: classes.button, onClick: () => {
-                            // eslint-disable-next-line @typescript-eslint/no-floating-promises
                             ;
                             (async () => {
                                 try {

package/esm/LinearSyntenyView/components/ImportForm/TrackSelector.d.ts

@@ -1,5 +1,5 @@
 import React from 'react';
-import { LinearSyntenyViewModel } from '../../model';
+import type { LinearSyntenyViewModel } from '../../model';
 declare const ImportSyntenyTrackSelector: ({ model, assembly1, assembly2, preConfiguredSyntenyTrack, setPreConfiguredSyntenyTrack, }: {
     model: LinearSyntenyViewModel;
     assembly1: string;

package/esm/LinearSyntenyView/components/ImportForm/TrackSelector.js

@@ -1,9 +1,9 @@
-import React, { useState, useEffect } from 'react';
-import { Select, MenuItem, Paper, Typography } from '@mui/material';
+import React, { useEffect, useState } from 'react';
+import { readConfObject } from '@jbrowse/core/configuration';
+import { ErrorMessage } from '@jbrowse/core/ui';
 import { getSession } from '@jbrowse/core/util';
 import { getTrackName } from '@jbrowse/core/util/tracks';
-import { ErrorMessage } from '@jbrowse/core/ui';
-import { readConfObject, } from '@jbrowse/core/configuration';
+import { MenuItem, Paper, Select, Typography } from '@mui/material';
 import { observer } from 'mobx-react';
 const ImportSyntenyTrackSelector = observer(function ({ model, assembly1, assembly2, preConfiguredSyntenyTrack, setPreConfiguredSyntenyTrack, }) {
     var _a;
@@ -19,8 +19,6 @@ const ImportSyntenyTrackSelector = observer(function ({ model, assembly1, assemb
     const resetTrack = ((_a = filteredTracks[0]) === null || _a === void 0 ? void 0 : _a.trackId) || '';
     const [value, setValue] = useState(resetTrack);
     useEffect(() => {
-        // sets track data in a useEffect because the initial load is needed as
-        // well as onChange's to the select box
         if (value !== preConfiguredSyntenyTrack) {
             setPreConfiguredSyntenyTrack(value);
         }

package/esm/LinearSyntenyView/components/ImportForm/TrackSelectorUtil.d.ts

@@ -1,7 +1,7 @@
 import React from 'react';
-import { SnapshotIn } from 'mobx-state-tree';
-import { AnyConfigurationModel } from '@jbrowse/core/configuration';
-import { LinearSyntenyViewModel } from '../../model';
+import type { LinearSyntenyViewModel } from '../../model';
+import type { AnyConfigurationModel } from '@jbrowse/core/configuration';
+import type { SnapshotIn } from 'mobx-state-tree';
 type Conf = SnapshotIn<AnyConfigurationModel>;
 export default function TrackSelector({ model, assembly1, assembly2, preConfiguredSyntenyTrack, setPreConfiguredSyntenyTrack, setUserOpenedSyntenyTrack, }: {
     model: LinearSyntenyViewModel;

package/esm/LinearSyntenyView/components/ImportForm/TrackSelectorUtil.js

@@ -1,4 +1,4 @@
-import React, { useState, useEffect } from 'react';
+import React, { useEffect, useState } from 'react';
 import { FormControl, FormControlLabel, Radio, RadioGroup } from '@mui/material';
 import ImportCustomTrack from './AddCustomTrack';
 import ImportSyntenyTrackSelector from './TrackSelector';

package/esm/LinearSyntenyView/components/ImportForm/util.js

@@ -1,10 +1,8 @@
 export function getName(sessionTrackData) {
     return sessionTrackData
-        ? // @ts-expect-error
+        ?
             sessionTrackData.uri ||
-                // @ts-expect-error
                 sessionTrackData.localPath ||
-                // @ts-expect-error
                 sessionTrackData.name
         : undefined;
 }

package/esm/LinearSyntenyView/components/LinearSyntenyView.d.ts

@@ -1,5 +1,5 @@
 import React from 'react';
-import { LinearSyntenyViewModel } from '../model';
+import type { LinearSyntenyViewModel } from '../model';
 type LSV = LinearSyntenyViewModel;
 declare const LinearSyntenyView: ({ model }: {
     model: LSV;

package/esm/LinearSyntenyView/components/LinearSyntenyView.js

@@ -1,6 +1,5 @@
 import React, { lazy } from 'react';
 import { observer } from 'mobx-react';
-// locals
 import LinearComparativeViewComponent from '../../LinearComparativeView/components/LinearComparativeView';
 const LinearSyntenyImportForm = lazy(() => import('./ImportForm/LinearSyntenyImportForm'));
 const LinearSyntenyView = observer(function ({ model }) {

package/esm/LinearSyntenyView/index.d.ts

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