@jbrowse/plugin-linear-genome-view 3.0.5 → 3.2.0

package/esm/LinearGenomeView/components/Scalebar.js

@@ -3,6 +3,7 @@ import { forwardRef } from 'react';
 import { Paper } from '@mui/material';
 import { observer } from 'mobx-react';
 import { makeStyles } from 'tss-react/mui';
+import Gridlines from './Gridlines';
 import ScalebarCoordinateLabels from './ScalebarCoordinateLabels';
 import ScalebarRefNameLabels from './ScalebarRefNameLabels';
 const useStyles = makeStyles()({
@@ -12,7 +13,6 @@ const useStyles = makeStyles()({
     },
     zoomContainer: {
         position: 'relative',
-        zIndex: 1,
     },
     scalebar: {
         position: 'absolute',
@@ -24,7 +24,7 @@ const Scalebar = observer(forwardRef(function Scalebar2({ model, style, classNam
     const { classes, cx } = useStyles();
     const { staticBlocks, offsetPx, scaleFactor } = model;
     const offsetLeft = staticBlocks.offsetPx - offsetPx;
-    return (_jsxs(Paper, { "data-resizer": "true", className: cx(classes.container, className), variant: "outlined", ref: ref, style: style, ...other, children: [_jsx("div", { className: classes.zoomContainer, style: {
+    return (_jsxs(Paper, { "data-resizer": "true", className: cx(classes.container, className), variant: "outlined", ref: ref, style: style, ...other, children: [_jsx(Gridlines, { model: model, offset: 1 }), _jsx("div", { className: classes.zoomContainer, style: {
                     transform: scaleFactor !== 1 ? `scaleX(${scaleFactor})` : undefined,
                 }, children: _jsx("div", { className: classes.scalebar, style: {
                         left: offsetLeft - 1,

package/esm/LinearGenomeView/components/TrackContainer.js

@@ -6,31 +6,36 @@ import { Paper } from '@mui/material';
 import { observer } from 'mobx-react';
 import { isAlive } from 'mobx-state-tree';
 import { makeStyles } from 'tss-react/mui';
+import Gridlines from './Gridlines';
 import TrackLabelContainer from './TrackLabelContainer';
 import TrackRenderingContainer from './TrackRenderingContainer';
 const useStyles = makeStyles()({
     root: {
         marginTop: 2,
+        overflow: 'hidden',
+        position: 'relative',
+    },
+    unpinnedTrack: {
+        background: 'none',
     },
     resizeHandle: {
         height: 3,
         boxSizing: 'border-box',
         position: 'relative',
-        zIndex: 2,
     },
 });
 const TrackContainer = observer(function ({ model, track, }) {
-    const { classes } = useStyles();
+    const { classes, cx } = useStyles();
     const display = track.displays[0];
     const { draggingTrackId, showTrackOutlines } = model;
     const ref = useRef(null);
-    return (_jsxs(Paper, { ref: ref, className: classes.root, variant: showTrackOutlines ? 'outlined' : undefined, elevation: showTrackOutlines ? undefined : 0, onClick: event => {
+    return (_jsxs(Paper, { ref: ref, className: cx(classes.root, track.pinned ? null : classes.unpinnedTrack), variant: showTrackOutlines ? 'outlined' : undefined, elevation: showTrackOutlines ? undefined : 0, onClick: event => {
             var _a;
             if (event.detail === 2 && !track.displays[0].featureIdUnderMouse) {
                 const left = ((_a = ref.current) === null || _a === void 0 ? void 0 : _a.getBoundingClientRect().left) || 0;
                 model.zoomTo(model.bpPerPx / 2, event.clientX - left, true);
             }
-        }, children: [_jsx(TrackLabelContainer, { track: track, view: model }), _jsx(ErrorBoundary, { FallbackComponent: e => _jsx(ErrorMessage, { error: e.error }), children: _jsx(TrackRenderingContainer, { model: model, track: track, onDragEnter: () => {
+        }, children: [track.pinned ? _jsx(Gridlines, { model: model, offset: 1 }) : null, _jsx(TrackLabelContainer, { track: track, view: model }), _jsx(ErrorBoundary, { FallbackComponent: e => _jsx(ErrorMessage, { error: e.error }), children: _jsx(TrackRenderingContainer, { model: model, track: track, onDragEnter: () => {
                         if (isAlive(display) &&
                             draggingTrackId !== undefined &&
                             draggingTrackId !== display.id) {

package/esm/LinearGenomeView/components/TrackLabel.js

@@ -29,7 +29,7 @@ const TrackLabel = observer(forwardRef(function TrackLabel2({ track, className }
     const view = getContainingView(track);
     const session = getSession(track);
     const trackConf = track.configuration;
-    const minimized = track.minimized;
+    const { minimized } = track;
     const trackId = getConf(track, 'trackId');
     const trackName = getTrackName(trackConf, session);
     return (_jsxs(Paper, { ref: ref, className: cx(className, classes.root), onClick: event => {

package/esm/LinearGenomeView/components/TrackLabelContainer.js

@@ -4,7 +4,7 @@ import { makeStyles } from 'tss-react/mui';
 import TrackLabel from './TrackLabel';
 const useStyles = makeStyles()({
     trackLabel: {
-        zIndex: 3,
+        zIndex: 2,
     },
     trackLabelOffset: {
         position: 'relative',

package/esm/LinearGenomeView/components/TrackLabelMenu.js

@@ -8,6 +8,7 @@ import KeyboardDoubleArrowDownIcon from '@mui/icons-material/KeyboardDoubleArrow
 import KeyboardDoubleArrowUpIcon from '@mui/icons-material/KeyboardDoubleArrowUp';
 import MinimizeIcon from '@mui/icons-material/Minimize';
 import MoreVertIcon from '@mui/icons-material/MoreVert';
+import PushPinIcon from '@mui/icons-material/PushPin';
 import { observer } from 'mobx-react';
 const TrackLabelMenu = observer(function ({ track, }) {
     var _a;
@@ -15,7 +16,27 @@ const TrackLabelMenu = observer(function ({ track, }) {
     const session = getSession(track);
     const trackConf = track.configuration;
     const minimized = track.minimized;
+    const pinned = track.pinned;
+    let lgvHasParentView;
+    try {
+        getContainingView(view);
+        lgvHasParentView = true;
+    }
+    catch (error) {
+        lgvHasParentView = false;
+    }
     const items = [
+        ...(lgvHasParentView
+            ? []
+            : [
+                {
+                    label: pinned ? 'Unpin track' : 'Pin track',
+                    icon: PushPinIcon,
+                    onClick: () => {
+                        track.setPinned(!pinned);
+                    },
+                },
+            ]),
         {
             label: 'Track order',
             type: 'subMenu',

package/esm/LinearGenomeView/components/TrackRenderingContainer.js

@@ -17,7 +17,6 @@ const useStyles = makeStyles()({
         whiteSpace: 'nowrap',
         position: 'relative',
         background: 'none',
-        zIndex: 2,
     },
 });
 const TrackRenderingContainer = observer(function ({ model, track, onDragEnter, }) {

package/esm/LinearGenomeView/components/TracksContainer.js

@@ -18,22 +18,21 @@ const RubberbandSpan = lazy(() => import('./RubberbandSpan'));
 const useStyles = makeStyles()({
     tracksContainer: {
         position: 'relative',
-        overflow: 'hidden',
     },
 });
 const TracksContainer = observer(function TracksContainer({ children, model, }) {
     const { classes } = useStyles();
     const { pluginManager } = getEnv(model);
     const { mouseDown: mouseDown1, mouseUp } = useSideScroll(model);
-    const { showGridlines, showCenterLine } = model;
+    const { stickyViewHeaders, rubberbandTop, showGridlines, showCenterLine } = model;
     const ref = useRef(null);
     const { guideX, rubberbandOn, leftBpOffset, rightBpOffset, numOfBpSelected, width, left, anchorPosition, open, handleMenuItemClick, handleClose, mouseMove, mouseDown: mouseDown2, } = useRangeSelect(ref, model, true);
     useWheelScroll(ref, model);
     const additional = pluginManager.evaluateExtensionPoint('LinearGenomeView-TracksContainerComponent', undefined, { model });
-    return (_jsxs("div", { ref: ref, "data-testid": "trackContainer", className: classes.tracksContainer, onMouseDown: event => {
+    return (_jsxs("div", { ref: ref, "data-testid": "tracksContainer", className: classes.tracksContainer, onMouseDown: event => {
             mouseDown1(event);
             mouseDown2(event);
-        }, onMouseMove: mouseMove, onMouseUp: mouseUp, children: [showGridlines ? _jsx(Gridlines, { model: model }) : null, _jsx(Suspense, { fallback: null, children: showCenterLine ? _jsx(CenterLine, { model: model }) : null }), guideX !== undefined ? (_jsx(VerticalGuide, { model: model, coordX: guideX })) : rubberbandOn ? (_jsx(Suspense, { fallback: null, children: _jsx(RubberbandSpan, { leftBpOffset: leftBpOffset, rightBpOffset: rightBpOffset, numOfBpSelected: numOfBpSelected, width: width, left: left }) })) : null, anchorPosition ? (_jsx(Menu, { anchorReference: "anchorPosition", anchorPosition: {
+        }, onMouseMove: mouseMove, onMouseUp: mouseUp, children: [showGridlines ? _jsx(Gridlines, { model: model }) : null, _jsx(Suspense, { fallback: null, children: showCenterLine ? _jsx(CenterLine, { model: model }) : null }), guideX !== undefined ? (_jsx(VerticalGuide, { model: model, coordX: guideX })) : rubberbandOn ? (_jsx(Suspense, { fallback: null, children: _jsx(RubberbandSpan, { leftBpOffset: leftBpOffset, rightBpOffset: rightBpOffset, numOfBpSelected: numOfBpSelected, width: width, left: left, top: rubberbandTop, sticky: stickyViewHeaders }) })) : null, anchorPosition ? (_jsx(Menu, { anchorReference: "anchorPosition", anchorPosition: {
                     left: anchorPosition.clientX,
                     top: anchorPosition.clientY,
                 }, onMenuItemClick: handleMenuItemClick, open: open, onClose: handleClose, menuItems: model.rubberBandMenuItems() })) : null, _jsx(Rubberband, { model: model, ControlComponent: _jsx(Scalebar, { model: model, style: {

package/esm/LinearGenomeView/components/VerticalGuide.js

@@ -1,4 +1,4 @@
-import { jsx as _jsx } from "react/jsx-runtime";
+import { jsx as _jsx, Fragment as _Fragment, jsxs as _jsxs } from "react/jsx-runtime";
 import { stringify } from '@jbrowse/core/util';
 import { Tooltip } from '@mui/material';
 import { observer } from 'mobx-react';
@@ -9,14 +9,21 @@ const useStyles = makeStyles()({
         height: '100%',
         width: 1,
         position: 'absolute',
-        zIndex: 10,
+        background: 'red',
+        zIndex: 1001,
+    },
+    tooltipTarget: {
+        position: 'sticky',
+        width: 1,
     },
 });
 const VerticalGuide = observer(function VerticalGuide({ model, coordX, }) {
     const { classes } = useStyles();
-    return (_jsx(Tooltip, { open: true, placement: "top", title: stringify(model.pxToBp(coordX)), arrow: true, children: _jsx("div", { className: classes.guide, style: {
-                left: coordX,
-                background: 'red',
-            } }) }));
+    const { stickyViewHeaders, rubberbandTop } = model;
+    return (_jsxs(_Fragment, { children: [_jsx(Tooltip, { open: true, placement: "top", title: stringify(model.pxToBp(coordX)), arrow: true, children: _jsx("div", { className: classes.tooltipTarget, style: {
+                        left: coordX + 6,
+                        top: rubberbandTop,
+                        position: stickyViewHeaders ? 'sticky' : undefined,
+                    } }) }), _jsx("div", { className: classes.guide, style: { left: coordX } })] }));
 });
 export default VerticalGuide;

package/esm/LinearGenomeView/model.d.ts

@@ -1,5 +1,5 @@
 import type React from 'react';
-import type { BpOffset, ExportSvgOptions, HighlightType, NavLocation } from './types';
+import type { BpOffset, ExportSvgOptions, HighlightType, InitState, NavLocation } from './types';
 import type PluginManager from '@jbrowse/core/PluginManager';
 import type BaseResult from '@jbrowse/core/TextSearch/BaseResults';
 import type { Assembly } from '@jbrowse/core/assemblyManager/assembly';
@@ -30,6 +30,7 @@ export declare function stateModelFactory(pluginManager: PluginManager): import(
     highlight: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IArrayType<import("mobx-state-tree").IType<HighlightType, HighlightType, HighlightType>>, [undefined]>;
     colorByCDS: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
     showTrackOutlines: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
+    init: import("mobx-state-tree").IType<InitState | undefined, InitState | undefined, InitState | undefined>;
 }, {
     width: number;
 } & {
@@ -51,10 +52,15 @@ export declare function stateModelFactory(pluginManager: PluginManager): import(
     leftOffset: undefined | BpOffset;
     rightOffset: undefined | BpOffset;
 } & {
+    readonly pinnedTracks: any[];
+    readonly unpinnedTracks: any[];
     readonly trackLabelsSetting: any;
     readonly width: number;
     readonly interRegionPaddingWidth: number;
     readonly assemblyNames: string[];
+    readonly stickyViewHeaders: boolean;
+    readonly rubberbandTop: number;
+    readonly pinnedTracksTop: number;
 } & {
     scaleBarDisplayPrefix(): string | undefined;
     MiniControlsComponent(): React.FC<any>;
@@ -140,6 +146,7 @@ export declare function stateModelFactory(pluginManager: PluginManager): import(
     setDraggingTrackId(idx?: string): void;
     setScaleFactor(factor: number): void;
     clearView(): void;
+    setInit(arg?: InitState): void;
     exportSvg(opts?: ExportSvgOptions): Promise<void>;
 } & {
     slide: (viewWidths: number) => void;
@@ -160,7 +167,6 @@ export declare function stateModelFactory(pluginManager: PluginManager): import(
     readonly coarseVisibleLocStrings: string;
 } & {
     setCoarseDynamicBlocks(blocks: BlockSet): void;
-    afterAttach(): void;
 } & {
     moveTo(start?: BpOffset, end?: BpOffset): void;
     navToLocString(input: string, optAssemblyName?: string): Promise<void>;
@@ -206,6 +212,7 @@ export declare function stateModelFactory(pluginManager: PluginManager): import(
     } | undefined;
 } & {
     afterCreate(): void;
+    afterAttach(): void;
 }, import("mobx-state-tree").ModelCreationType<import("mobx-state-tree/dist/internal").ExtractCFromProps<{
     id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
     displayName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
@@ -228,7 +235,28 @@ export declare function stateModelFactory(pluginManager: PluginManager): import(
     highlight: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IArrayType<import("mobx-state-tree").IType<HighlightType, HighlightType, HighlightType>>, [undefined]>;
     colorByCDS: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
     showTrackOutlines: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
-}>>, import("mobx-state-tree")._NotCustomized>;
+    init: import("mobx-state-tree").IType<InitState | undefined, InitState | undefined, InitState | undefined>;
+}>>, {
+    type: string;
+    id: string;
+    displayName: string | undefined;
+    tracks: any[];
+    minimized: boolean;
+    displayedRegions: Region[];
+    offsetPx: number;
+    bpPerPx: number;
+    hideHeader: boolean;
+    hideHeaderOverview: boolean;
+    hideNoTracksActive: boolean;
+    trackSelectorType: string;
+    showCenterLine: boolean;
+    showCytobandsSetting: boolean;
+    trackLabels: string;
+    showGridlines: boolean;
+    highlight: HighlightType[];
+    colorByCDS: boolean;
+    showTrackOutlines: boolean;
+}>;
 export type LinearGenomeViewStateModel = ReturnType<typeof stateModelFactory>;
 export type LinearGenomeViewModel = Instance<LinearGenomeViewStateModel>;
 export { default as LinearGenomeView, default as ReactComponent, } from './components/LinearGenomeView';

package/esm/LinearGenomeView/model.js

@@ -1,6 +1,7 @@
 import { lazy } from 'react';
 import { getConf } from '@jbrowse/core/configuration';
 import { BaseViewModel } from '@jbrowse/core/pluggableElementTypes/models';
+import { VIEW_HEADER_HEIGHT } from '@jbrowse/core/ui';
 import { TrackSelector as TrackSelectorIcon } from '@jbrowse/core/ui/Icons';
 import { assembleLocString, clamp, findLast, getSession, isSessionModelWithWidgets, isSessionWithAddTracks, localStorageGetBoolean, localStorageGetItem, localStorageSetItem, measureText, springAnimate, sum, } from '@jbrowse/core/util';
 import { bpToPx, moveTo, pxToBp } from '@jbrowse/core/util/Base1DUtils';
@@ -9,6 +10,7 @@ import calculateDynamicBlocks from '@jbrowse/core/util/calculateDynamicBlocks';
 import calculateStaticBlocks from '@jbrowse/core/util/calculateStaticBlocks';
 import { getParentRenderProps } from '@jbrowse/core/util/tracks';
 import { ElementId } from '@jbrowse/core/util/types/mst';
+import { isSessionWithMultipleViews } from '@jbrowse/product-core';
 import FolderOpenIcon from '@mui/icons-material/FolderOpen';
 import LabelIcon from '@mui/icons-material/Label';
 import MenuOpenIcon from '@mui/icons-material/MenuOpen';
@@ -51,6 +53,7 @@ export function stateModelFactory(pluginManager) {
         highlight: types.optional(types.array(types.frozen()), []),
         colorByCDS: types.optional(types.boolean, () => localStorageGetBoolean('lgv-colorByCDS', false)),
         showTrackOutlines: types.optional(types.boolean, () => localStorageGetBoolean('lgv-showTrackOutlines', true)),
+        init: types.frozen(),
     }))
         .volatile(() => ({
         volatileWidth: undefined,
@@ -66,6 +69,12 @@ export function stateModelFactory(pluginManager) {
         rightOffset: undefined,
     }))
         .views(self => ({
+        get pinnedTracks() {
+            return self.tracks.filter(t => t.pinned);
+        },
+        get unpinnedTracks() {
+            return self.tracks.filter(t => !t.pinned);
+        },
         get trackLabelsSetting() {
             const sessionSetting = getConf(getSession(self), [
                 'LinearGenomeViewPlugin',
@@ -87,6 +96,28 @@ export function stateModelFactory(pluginManager) {
                 ...new Set(self.displayedRegions.map(region => region.assemblyName)),
             ];
         },
+        get stickyViewHeaders() {
+            const session = getSession(self);
+            return isSessionWithMultipleViews(session)
+                ? session.stickyViewHeaders
+                : false;
+        },
+        get rubberbandTop() {
+            let pinnedTracksTop = 0;
+            if (this.stickyViewHeaders) {
+                pinnedTracksTop = VIEW_HEADER_HEIGHT;
+                if (!self.hideHeader) {
+                    pinnedTracksTop += HEADER_BAR_HEIGHT;
+                    if (!self.hideHeaderOverview) {
+                        pinnedTracksTop += HEADER_OVERVIEW_HEIGHT;
+                    }
+                }
+            }
+            return pinnedTracksTop;
+        },
+        get pinnedTracksTop() {
+            return this.rubberbandTop + SCALE_BAR_HEIGHT;
+        },
     }))
         .views(self => ({
         scaleBarDisplayPrefix() {
@@ -200,32 +231,32 @@ export function stateModelFactory(pluginManager) {
             return results;
         },
         rewriteOnClicks(trackType, viewMenuActions) {
-            viewMenuActions.forEach(action => {
+            for (const action of viewMenuActions) {
                 if ('subMenu' in action) {
                     this.rewriteOnClicks(trackType, action.subMenu);
                 }
                 if ('onClick' in action) {
                     const holdOnClick = action.onClick;
                     action.onClick = (...args) => {
-                        self.tracks.forEach(track => {
+                        for (const track of self.tracks) {
                             if (track.type === trackType) {
                                 holdOnClick.apply(track, [track, ...args]);
                             }
-                        });
+                        }
                     };
                 }
-            });
+            }
         },
         get trackTypeActions() {
             const allActions = new Map();
-            self.tracks.forEach(track => {
+            for (const track of self.tracks) {
                 const trackInMap = allActions.get(track.type);
                 if (!trackInMap) {
                     const viewMenuActions = structuredClone(track.viewMenuActions);
                     this.rewriteOnClicks(track.type, viewMenuActions);
                     allActions.set(track.type, viewMenuActions);
                 }
-            });
+            }
             return allActions;
         },
     }))
@@ -350,11 +381,13 @@ export function stateModelFactory(pluginManager) {
         hideTrack(trackId) {
             const schema = pluginManager.pluggableConfigSchemaType('track');
             const conf = resolveIdentifier(schema, getRoot(self), trackId);
-            const t = self.tracks.filter(t => t.configuration === conf);
+            const tracks = self.tracks.filter(t => t.configuration === conf);
             transaction(() => {
-                t.forEach(t => self.tracks.remove(t));
+                for (const track of tracks) {
+                    self.tracks.remove(track);
+                }
             });
-            return t.length;
+            return tracks.length;
         },
     }))
         .actions(self => ({
@@ -495,6 +528,9 @@ export function stateModelFactory(pluginManager) {
             self.scrollTo(0);
             self.zoomTo(10);
         },
+        setInit(arg) {
+            self.init = arg;
+        },
         async exportSvg(opts = {}) {
             const { renderToSvg } = await import('./svgcomponents/SVGLinearGenomeView');
             const html = await renderToSvg(self, opts);
@@ -715,7 +751,9 @@ export function stateModelFactory(pluginManager) {
             for (const [key, value] of self.trackTypeActions.entries()) {
                 if (value.length) {
                     menuItems.push({ type: 'divider' }, { type: 'subHeader', label: key });
-                    value.forEach(action => menuItems.push(action));
+                    for (const action of value) {
+                        menuItems.push(action);
+                    }
                 }
             }
             return menuItems;
@@ -757,20 +795,6 @@ export function stateModelFactory(pluginManager) {
             self.coarseDynamicBlocks = blocks.contentBlocks;
             self.coarseTotalBp = blocks.totalBp;
         },
-        afterAttach() {
-            addDisposer(self, autorun(() => {
-                if (self.initialized) {
-                    this.setCoarseDynamicBlocks(self.dynamicBlocks);
-                }
-            }, { delay: 150 }));
-            addDisposer(self, autorun(() => {
-                const s = (s) => JSON.stringify(s);
-                const { showCytobandsSetting, showCenterLine, colorByCDS } = self;
-                localStorageSetItem('lgv-showCytobands', s(showCytobandsSetting));
-                localStorageSetItem('lgv-showCenterLine', s(showCenterLine));
-                localStorageSetItem('lgv-colorByCDS', s(colorByCDS));
-            }));
-        },
     }))
         .actions(self => ({
         moveTo(start, end) {
@@ -937,6 +961,33 @@ export function stateModelFactory(pluginManager) {
                 document.removeEventListener('keydown', handler);
             });
         },
+        afterAttach() {
+            addDisposer(self, autorun(() => {
+                var _a;
+                const { init } = self;
+                if (init) {
+                    self
+                        .navToLocString(init.loc, init.assembly)
+                        .catch((e) => {
+                        getSession(self).notifyError(`${e}`, e);
+                    });
+                    (_a = init.tracks) === null || _a === void 0 ? void 0 : _a.map(t => self.showTrack(t));
+                    self.setInit(undefined);
+                }
+            }));
+            addDisposer(self, autorun(() => {
+                if (self.initialized) {
+                    self.setCoarseDynamicBlocks(self.dynamicBlocks);
+                }
+            }, { delay: 150 }));
+            addDisposer(self, autorun(() => {
+                const s = (s) => JSON.stringify(s);
+                const { showCytobandsSetting, showCenterLine, colorByCDS } = self;
+                localStorageSetItem('lgv-showCytobands', s(showCytobandsSetting));
+                localStorageSetItem('lgv-showCenterLine', s(showCenterLine));
+                localStorageSetItem('lgv-colorByCDS', s(colorByCDS));
+            }));
+        },
     }))
         .preProcessSnapshot(snap => {
         if (!snap) {
@@ -949,6 +1000,15 @@ export function stateModelFactory(pluginManager) {
                 : [highlight],
             ...rest,
         };
+    })
+        .postProcessSnapshot(snap => {
+        if (!snap) {
+            return snap;
+        }
+        else {
+            const { init, ...rest } = snap;
+            return rest;
+        }
     });
 }
 export { default as LinearGenomeView, default as ReactComponent, } from './components/LinearGenomeView';

package/esm/LinearGenomeView/svgcomponents/SVGLinearGenomeView.js

@@ -14,12 +14,12 @@ export async function renderToSvg(model, opts) {
     const session = getSession(model);
     const { allThemes } = session;
     const theme = allThemes === null || allThemes === void 0 ? void 0 : allThemes()[themeName];
-    const { width, tracks, showCytobands } = model;
+    const { width, pinnedTracks, unpinnedTracks, tracks, showCytobands } = model;
     const shift = 50;
     const c = +showCytobands * cytobandHeight;
     const offset = headerHeight + rulerHeight + c + 10;
     const height = totalHeight(tracks, textHeight, trackLabels) + offset + 100;
-    const displayResults = await Promise.all(tracks.map(async (track) => {
+    const displayResults = await Promise.all([...pinnedTracks, ...unpinnedTracks].map(async (track) => {
         const display = track.displays[0];
         await when(() => !display.renderProps().notReady);
         return { track, result: await display.renderSvg({ ...opts, theme }) };

package/esm/LinearGenomeView/types.d.ts

@@ -36,3 +36,8 @@ export interface NavLocation {
     end?: number;
     assemblyName?: string;
 }
+export interface InitState {
+    loc: string;
+    assembly: string;
+    tracks?: string[];
+}

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-linear-genome-view",
-  "version": "3.0.5",
+  "version": "3.2.0",
   "description": "JBrowse 2 linear genome view",
   "keywords": [
     "jbrowse",
@@ -38,7 +38,7 @@
     "useSrc": "node ../../scripts/useSrc.js"
   },
   "dependencies": {
-    "@jbrowse/core": "^3.0.5",
+    "@jbrowse/core": "^3.2.0",
     "@mui/icons-material": "^6.0.0",
     "@mui/material": "^6.0.0",
     "@types/file-saver": "^2.0.1",
@@ -58,5 +58,5 @@
     "access": "public"
   },
   "module": "esm/index.js",
-  "gitHead": "a03749efe19e51609922272b845a331897346789"
+  "gitHead": "c750e3f56706a490c19ba75abd807fec5e38aebf"
 }

package/dist/BaseLinearDisplay/components/BlockError.d.ts

@@ -1,4 +0,0 @@
-declare const BlockError: ({ model }: {
-    model: any;
-}) => import("react/jsx-runtime").JSX.Element;
-export default BlockError;

package/esm/BaseLinearDisplay/components/BlockError.d.ts

@@ -1,4 +0,0 @@
-declare const BlockError: ({ model }: {
-    model: any;
-}) => import("react/jsx-runtime").JSX.Element;
-export default BlockError;