@jbrowse/plugin-sv-inspector 2.6.1

package/dist/SvInspectorView/models/SvInspectorView.js

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+"use strict";
+var __importDefault = (this && this.__importDefault) || function (mod) {
+    return (mod && mod.__esModule) ? mod : { "default": mod };
+};
+Object.defineProperty(exports, "__esModule", { value: true });
+const clone_1 = __importDefault(require("clone"));
+const mobx_1 = require("mobx");
+const mobx_state_tree_1 = require("mobx-state-tree");
+const util_1 = require("@jbrowse/core/util");
+const configuration_1 = require("@jbrowse/core/configuration");
+const mst_1 = require("@jbrowse/core/util/types/mst");
+const models_1 = require("@jbrowse/core/pluggableElementTypes/models");
+// icons
+const OpenInNew_1 = __importDefault(require("@mui/icons-material/OpenInNew"));
+const FolderOpen_1 = __importDefault(require("@mui/icons-material/FolderOpen"));
+// locals
+const breakpointSplitViewFromTableRow_1 = require("./breakpointSplitViewFromTableRow");
+/**
+ * #stateModel SvInspectorView
+ * #category view
+ * combination of a spreadsheetview and a circularview
+ */
+function SvInspectorViewF(pluginManager) {
+    const SpreadsheetViewType = pluginManager.getViewType('SpreadsheetView');
+    const CircularViewType = pluginManager.getViewType('CircularView');
+    const SpreadsheetModel = SpreadsheetViewType.stateModel;
+    const CircularModel = CircularViewType.stateModel;
+    const minHeight = 400;
+    const defaultHeight = 550;
+    const headerHeight = 52;
+    const circularViewOptionsBarHeight = 52;
+    return mobx_state_tree_1.types
+        .compose(models_1.BaseViewModel, mobx_state_tree_1.types.model('SvInspectorView', {
+        /**
+         * #property
+         */
+        id: mst_1.ElementId,
+        /**
+         * #property
+         */
+        type: mobx_state_tree_1.types.literal('SvInspectorView'),
+        /**
+         * #property
+         */
+        height: mobx_state_tree_1.types.optional(mobx_state_tree_1.types.refinement('SvInspectorViewHeight', mobx_state_tree_1.types.number, n => n >= minHeight), defaultHeight),
+        /**
+         * #property
+         */
+        onlyDisplayRelevantRegionsInCircularView: false,
+        /**
+         * #property
+         * switch specifying whether we are showing the import wizard or the
+         * spreadsheet in our viewing area
+         */
+        mode: mobx_state_tree_1.types.optional(mobx_state_tree_1.types.enumeration('SvInspectorViewMode', ['import', 'display']), 'import'),
+        /**
+         * #property
+         */
+        spreadsheetView: mobx_state_tree_1.types.optional(SpreadsheetModel, () => SpreadsheetModel.create({
+            type: 'SpreadsheetView',
+            hideVerticalResizeHandle: true,
+        })),
+        /**
+         * #property
+         */
+        circularView: mobx_state_tree_1.types.optional(CircularModel, () => CircularModel.create({
+            type: 'CircularView',
+            hideVerticalResizeHandle: true,
+            hideTrackSelectorButton: true,
+            disableImportForm: true,
+        })),
+    }))
+        .volatile(() => ({
+        width: 800,
+    }))
+        .views(self => ({
+        /**
+         * #getter
+         */
+        get selectedRows() {
+            // @ts-expect-error
+            return self.spreadsheetView.rowSet.selectedRows;
+        },
+        /**
+         * #getter
+         */
+        get assemblyName() {
+            const { assembly } = self.spreadsheetView;
+            return assembly ? (0, configuration_1.readConfObject)(assembly, 'name') : undefined;
+        },
+        /**
+         * #getter
+         */
+        get showCircularView() {
+            return self.spreadsheetView.mode === 'display';
+        },
+        /**
+         * #getter
+         */
+        get features() {
+            const session = (0, util_1.getSession)(self);
+            const { spreadsheetView } = self;
+            const { outputRows = [] } = spreadsheetView;
+            return outputRows
+                .map((r, i) => (0, breakpointSplitViewFromTableRow_1.getFeatureForRow)(session, spreadsheetView, r, i))
+                .filter(f => !!f);
+        },
+        /**
+         * #getter
+         */
+        get featuresAdapterConfigSnapshot() {
+            return {
+                type: 'FromConfigAdapter',
+                features: this.features,
+            };
+        },
+        /**
+         * #getter
+         */
+        get featureRefNames() {
+            const refs = this.features.map(r => r.refName);
+            const CHR2 = this.features.flatMap(r => { var _a; return (_a = r.INFO) === null || _a === void 0 ? void 0 : _a.CHR2; }).filter(f => !!f);
+            return [...refs, ...CHR2];
+        },
+        /**
+         * #getter
+         */
+        get featuresCircularTrackConfiguration() {
+            return {
+                type: 'VariantTrack',
+                trackId: `sv-inspector-variant-track-${self.id}`,
+                name: 'features from tabular data',
+                adapter: this.featuresAdapterConfigSnapshot,
+                assemblyNames: [this.assemblyName],
+                displays: [
+                    {
+                        type: 'ChordVariantDisplay',
+                        displayId: `sv-inspector-variant-track-chord-display-${self.id}`,
+                        onChordClick: `jexl:defaultOnChordClick(feature, track, pluginManager)`,
+                        renderer: { type: 'StructuralVariantChordRenderer' },
+                    },
+                ],
+            };
+        },
+    }))
+        .volatile(() => ({
+        SpreadsheetViewReactComponent: SpreadsheetViewType.ReactComponent,
+        CircularViewReactComponent: CircularViewType.ReactComponent,
+        circularViewOptionsBarHeight,
+    }))
+        .actions(self => ({
+        /**
+         * #action
+         */
+        setWidth(newWidth) {
+            self.width = newWidth;
+        },
+        /**
+         * #action
+         */
+        setHeight(newHeight) {
+            self.height = newHeight > minHeight ? newHeight : minHeight;
+            return self.height;
+        },
+        /**
+         * #action
+         */
+        setImportMode() {
+            self.spreadsheetView.setImportMode();
+        },
+        /**
+         * #action
+         */
+        setDisplayMode() {
+            self.spreadsheetView.setDisplayMode();
+        },
+        /**
+         * #action
+         */
+        closeView() {
+            // eslint-disable-next-line @typescript-eslint/no-explicit-any
+            (0, mobx_state_tree_1.getParent)(self, 2).removeView(self);
+        },
+        /**
+         * #action
+         */
+        setDisplayedRegions(regions) {
+            self.circularView.setDisplayedRegions(regions);
+        },
+        /**
+         * #action
+         */
+        setOnlyDisplayRelevantRegionsInCircularView(val) {
+            self.onlyDisplayRelevantRegionsInCircularView = Boolean(val);
+        },
+    }))
+        .views(self => ({
+        /**
+         * #method
+         */
+        menuItems() {
+            return [
+                {
+                    label: 'Return to import form',
+                    onClick: () => self.setImportMode(),
+                    icon: FolderOpen_1.default,
+                },
+            ];
+        },
+    }))
+        .actions(self => ({
+        /**
+         * #action
+         */
+        resizeHeight(distance) {
+            const oldHeight = self.height;
+            const newHeight = self.setHeight(self.height + distance);
+            return newHeight - oldHeight;
+        },
+        afterAttach() {
+            // synchronize subview widths
+            (0, mobx_state_tree_1.addDisposer)(self, (0, mobx_1.autorun)(() => {
+                const borderWidth = 1;
+                if (self.showCircularView) {
+                    const spreadsheetWidth = Math.round(self.width * 0.66);
+                    const circularViewWidth = self.width - spreadsheetWidth;
+                    self.spreadsheetView.setWidth(spreadsheetWidth - borderWidth);
+                    self.circularView.setWidth(circularViewWidth);
+                }
+                else {
+                    self.spreadsheetView.setWidth(self.width);
+                }
+            }, { name: 'SvInspectorView width binding' }));
+            // synchronize subview heights
+            (0, mobx_state_tree_1.addDisposer)(self, (0, mobx_1.autorun)(() => {
+                self.spreadsheetView.setHeight(self.height - headerHeight);
+                self.circularView.setHeight(self.height - headerHeight - circularViewOptionsBarHeight);
+            }, { name: 'SvInspectorView height binding' }));
+            // bind circularview displayedRegions to spreadsheet assembly, mediated
+            // by the onlyRelevantRegions toggle
+            (0, mobx_state_tree_1.addDisposer)(self, (0, mobx_1.autorun)(async () => {
+                const { assemblyName, onlyDisplayRelevantRegionsInCircularView, circularView, featureRefNames, } = self;
+                const { tracks } = circularView;
+                const { assemblyManager } = (0, util_1.getSession)(self);
+                if (!assemblyName) {
+                    return;
+                }
+                const asm = await assemblyManager.waitForAssembly(assemblyName);
+                if (!asm) {
+                    return;
+                }
+                const { getCanonicalRefName, regions = [] } = asm;
+                if (onlyDisplayRelevantRegionsInCircularView) {
+                    if (tracks.length === 1) {
+                        try {
+                            // canonicalize the store's ref names if necessary
+                            const refSet = new Set(featureRefNames.map(r => getCanonicalRefName(r) || r));
+                            circularView.setDisplayedRegions((0, clone_1.default)(regions.filter(r => refSet.has(r.refName))));
+                        }
+                        catch (e) {
+                            circularView.setError(e);
+                        }
+                    }
+                }
+                else {
+                    circularView.setDisplayedRegions(regions);
+                }
+            }, { name: 'SvInspectorView displayed regions bind' }));
+            // bind circularview tracks to our track snapshot view
+            (0, mobx_state_tree_1.addDisposer)(self, (0, mobx_1.reaction)(() => ({
+                generatedTrackConf: self === null || self === void 0 ? void 0 : self.featuresCircularTrackConfiguration,
+                assemblyName: self === null || self === void 0 ? void 0 : self.assemblyName,
+            }), data => {
+                if (!data) {
+                    return;
+                }
+                const { assemblyName, generatedTrackConf } = data;
+                const { circularView } = self;
+                // hide any visible tracks
+                circularView.tracks.forEach(t => circularView.hideTrack(t.configuration.trackId));
+                // put our track in as the only track
+                if (assemblyName && generatedTrackConf) {
+                    // @ts-expect-error
+                    circularView.addTrackConf(generatedTrackConf, {
+                        assemblyName,
+                    });
+                }
+            }, {
+                name: 'SvInspectorView track configuration binding',
+                fireImmediately: true,
+            }));
+            // bind spreadsheetView row menu actions to us
+            (0, mobx_state_tree_1.addDisposer)(self, (0, mobx_1.autorun)(() => {
+                self.spreadsheetView.setRowMenuItems(
+                // these are the MenuItem entries for the row menu actions in the
+                // spreadsheet view.  these are installed into the child
+                // SpreadsheetView using an autorun below
+                [
+                    {
+                        label: 'Open split detail view',
+                        icon: OpenInNew_1.default,
+                        // @ts-expect-error
+                        disabled(spreadsheetView, spreadsheet, rowNumber, row) {
+                            return !(0, breakpointSplitViewFromTableRow_1.canOpenBreakpointSplitViewFromTableRow)(self, spreadsheetView, spreadsheet, row, rowNumber);
+                        },
+                        // @ts-expect-error
+                        onClick(spreadsheetView, spreadsheet, rowNumber, row) {
+                            (0, breakpointSplitViewFromTableRow_1.openBreakpointSplitViewFromTableRow)(self, spreadsheetView, spreadsheet, row, rowNumber);
+                        },
+                    },
+                ]);
+            }));
+        },
+    }));
+}
+exports.default = SvInspectorViewF;
+//# sourceMappingURL=SvInspectorView.js.map

package/dist/SvInspectorView/models/SvInspectorView.js.map

@@ -0,0 +1 @@
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package/dist/SvInspectorView/models/adhocFeatureUtils.d.ts

@@ -0,0 +1,44 @@
+export function makeAdHocFeature(columns: any, columnsAlreadyUsedInLocations: any, row: any, loc1: any, loc2: any, rowNumber: any): {
+    uniqueId: string;
+    refName: any;
+    start: any;
+    end: any;
+    mate: {
+        refName: any;
+        start: any;
+        end: any;
+    };
+};
+export function makeAdHocSvFeatureFromTwoLocations(columns: any, locationColumnNumbers: any, row: any, rowNumber: any, isValidRefName: any): {
+    uniqueId: string;
+    refName: any;
+    start: any;
+    end: any;
+    mate: {
+        refName: any;
+        start: any;
+        end: any;
+    };
+};
+export function makeAdHocSvFeatureFromTwoRefStartEndSets(columns: any, locRefColumnNumbers: any, locStartColumnNumbers: any, locEndColumnNumbers: any, row: any, rowNumber: any): {
+    uniqueId: string;
+    refName: any;
+    start: any;
+    end: any;
+    mate: {
+        refName: any;
+        start: any;
+        end: any;
+    };
+};
+export function makeAdHocSvFeature(sheet: any, rowNumber: any, row: any, isValidRefName: any): {
+    uniqueId: string;
+    refName: any;
+    start: any;
+    end: any;
+    mate: {
+        refName: any;
+        start: any;
+        end: any;
+    };
+} | undefined;

package/dist/SvInspectorView/models/adhocFeatureUtils.js

@@ -0,0 +1,97 @@
+"use strict";
+Object.defineProperty(exports, "__esModule", { value: true });
+exports.makeAdHocSvFeature = exports.makeAdHocSvFeatureFromTwoRefStartEndSets = exports.makeAdHocSvFeatureFromTwoLocations = exports.makeAdHocFeature = void 0;
+// this file contains the rather verbose functions for
+// creating features from CSV/TSV lines
+const util_1 = require("@jbrowse/core/util");
+function makeAdHocFeature(columns, columnsAlreadyUsedInLocations, row, loc1, loc2, rowNumber) {
+    // load all the other data in the row into an `otherData` object
+    const otherData = {};
+    columns.forEach((column, columnNumber) => {
+        if (columnsAlreadyUsedInLocations.includes(columnNumber)) {
+            return;
+        }
+        let { text } = row.cells[columnNumber];
+        if (column.dataType.type === 'Number') {
+            text = parseFloat(text);
+        }
+        otherData[column.name] = text;
+    });
+    // make the final feature data out of otherData + the parsed locations
+    return {
+        ...otherData,
+        uniqueId: `sv-inspector-adhoc-${rowNumber}`,
+        refName: loc1.refName,
+        start: loc1.start,
+        end: loc1.end,
+        mate: {
+            refName: loc2.refName,
+            start: loc2.start,
+            end: loc2.end,
+        },
+    };
+}
+exports.makeAdHocFeature = makeAdHocFeature;
+function makeAdHocSvFeatureFromTwoLocations(columns, locationColumnNumbers, row, rowNumber, isValidRefName) {
+    // use the first two locations we found (first according to *displayed* order)
+    const loc1 = (0, util_1.parseLocString)(row.cells[locationColumnNumbers[0]].text, isValidRefName);
+    const loc2 = (0, util_1.parseLocString)(row.cells[locationColumnNumbers[1]].text, isValidRefName);
+    const columnsAlreadyUsedInLocations = [
+        locationColumnNumbers[0],
+        locationColumnNumbers[1],
+    ];
+    return makeAdHocFeature(columns, columnsAlreadyUsedInLocations, row, loc1, loc2, rowNumber);
+}
+exports.makeAdHocSvFeatureFromTwoLocations = makeAdHocSvFeatureFromTwoLocations;
+function makeAdHocSvFeatureFromTwoRefStartEndSets(columns, locRefColumnNumbers, locStartColumnNumbers, locEndColumnNumbers, row, rowNumber) {
+    const textOf = colno => row.cells[colno].text;
+    const loc1 = {
+        refName: textOf(locRefColumnNumbers[0]),
+        start: parseInt(textOf(locStartColumnNumbers[0]), 10) - 1,
+        end: parseInt(textOf(locEndColumnNumbers[0]), 10),
+    };
+    const loc2 = {
+        refName: textOf(locRefColumnNumbers[1]),
+        start: parseInt(textOf(locStartColumnNumbers[1]), 10) - 1,
+        end: parseInt(textOf(locEndColumnNumbers[1]), 10),
+    };
+    const columnsAlreadyUsedInLocations = [
+        locRefColumnNumbers[0],
+        locStartColumnNumbers[0],
+        locEndColumnNumbers[0],
+        locRefColumnNumbers[1],
+        locStartColumnNumbers[1],
+        locEndColumnNumbers[1],
+    ];
+    return makeAdHocFeature(columns, columnsAlreadyUsedInLocations, row, loc1, loc2, rowNumber);
+}
+exports.makeAdHocSvFeatureFromTwoRefStartEndSets = makeAdHocSvFeatureFromTwoRefStartEndSets;
+// makes a feature data object (passed as `data` to a SimpleFeature constructor)
+// out of table row if the row has 2 location columns. undefined if not
+function makeAdHocSvFeature(sheet, rowNumber, row, isValidRefName) {
+    const { columns, columnDisplayOrder } = sheet;
+    const columnTypes = {};
+    columnDisplayOrder.forEach(columnNumber => {
+        const columnDefinition = columns[columnNumber];
+        if (!columnTypes[columnDefinition.dataType.type]) {
+            columnTypes[columnDefinition.dataType.type] = [];
+        }
+        columnTypes[columnDefinition.dataType.type].push(columnNumber);
+    });
+    const locationColumnNumbers = columnTypes.LocString || [];
+    const locStartColumnNumbers = columnTypes.LocStart || [];
+    const locEndColumnNumbers = columnTypes.LocEnd || [];
+    const locRefColumnNumbers = columnTypes.LocRef || [];
+    // if we have 2 or more columns of type location, make a feature from them
+    if (locationColumnNumbers.length >= 2) {
+        return makeAdHocSvFeatureFromTwoLocations(columns, locationColumnNumbers, row, rowNumber, isValidRefName);
+    }
+    if (locRefColumnNumbers.length >= 2 &&
+        locStartColumnNumbers.length >= 2 &&
+        locEndColumnNumbers.length >= 2) {
+        return makeAdHocSvFeatureFromTwoRefStartEndSets(columns, locRefColumnNumbers, locStartColumnNumbers, locEndColumnNumbers, row, rowNumber);
+    }
+    return undefined;
+}
+exports.makeAdHocSvFeature = makeAdHocSvFeature;
+//# sourceMappingURL=adhocFeatureUtils.js.map

package/dist/SvInspectorView/models/adhocFeatureUtils.js.map

@@ -0,0 +1 @@
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package/dist/SvInspectorView/models/breakpointSplitViewFromTableRow.d.ts

@@ -0,0 +1,4 @@
+export function getFeatureForRow(session: any, spreadsheetView: any, row: any, rowNumber: any): any;
+export function breakpointSplitViewSnapshotFromTableRow(svInspectorView: any, spreadsheetView: any, spreadsheet: any, row: any, rowNumber: any): any;
+export function openBreakpointSplitViewFromTableRow(svInspectorView: any, spreadsheetView: any, spreadsheet: any, row: any, rowNumber: any): void;
+export function canOpenBreakpointSplitViewFromTableRow(svInspectorView: any, spreadsheetView: any, spreadsheet: any, row: any, rowNumber: any): boolean;

package/dist/SvInspectorView/models/breakpointSplitViewFromTableRow.js

@@ -0,0 +1,49 @@
+"use strict";
+Object.defineProperty(exports, "__esModule", { value: true });
+exports.canOpenBreakpointSplitViewFromTableRow = exports.openBreakpointSplitViewFromTableRow = exports.breakpointSplitViewSnapshotFromTableRow = exports.getFeatureForRow = void 0;
+const util_1 = require("@jbrowse/core/util");
+const adhocFeatureUtils_1 = require("./adhocFeatureUtils");
+function getFeatureForRow(session, spreadsheetView, row, rowNumber) {
+    var _a, _b;
+    return (((_a = row.extendedData) === null || _a === void 0 ? void 0 : _a.vcfFeature) ||
+        ((_b = row.extendedData) === null || _b === void 0 ? void 0 : _b.feature) ||
+        (0, adhocFeatureUtils_1.makeAdHocSvFeature)(spreadsheetView.spreadsheet, rowNumber, row, session.assemblyManager.isValidRefName));
+}
+exports.getFeatureForRow = getFeatureForRow;
+function breakpointSplitViewSnapshotFromTableRow(svInspectorView, spreadsheetView, spreadsheet, row, rowNumber) {
+    const { pluginManager } = (0, util_1.getEnv)(svInspectorView);
+    const session = (0, util_1.getSession)(spreadsheetView);
+    const featureData = getFeatureForRow(session, spreadsheet, row, rowNumber);
+    if (featureData) {
+        const feature = new util_1.SimpleFeature(featureData);
+        session.setSelection(feature);
+        return pluginManager
+            .getViewType('BreakpointSplitView')
+            .snapshotFromBreakendFeature(feature, svInspectorView.circularView);
+    }
+    return undefined;
+}
+exports.breakpointSplitViewSnapshotFromTableRow = breakpointSplitViewSnapshotFromTableRow;
+function openBreakpointSplitViewFromTableRow(svInspectorView, spreadsheetView, spreadsheet, row, rowNumber) {
+    const viewSnapshot = breakpointSplitViewSnapshotFromTableRow(svInspectorView, spreadsheetView, spreadsheet, row, rowNumber);
+    if (viewSnapshot) {
+        // try to center the offsetPx
+        const { circularView } = svInspectorView;
+        viewSnapshot.views[0].offsetPx -= circularView.width / 2 + 100;
+        viewSnapshot.views[1].offsetPx -= circularView.width / 2 + 100;
+        const session = (0, util_1.getSession)(spreadsheetView);
+        session.addView('BreakpointSplitView', viewSnapshot);
+    }
+}
+exports.openBreakpointSplitViewFromTableRow = openBreakpointSplitViewFromTableRow;
+function canOpenBreakpointSplitViewFromTableRow(svInspectorView, spreadsheetView, spreadsheet, row, rowNumber) {
+    try {
+        return Boolean(breakpointSplitViewSnapshotFromTableRow(svInspectorView, spreadsheetView, spreadsheet, row, rowNumber));
+    }
+    catch (e) {
+        console.error('Unable to open breakpoint split view from table row', e);
+        return false;
+    }
+}
+exports.canOpenBreakpointSplitViewFromTableRow = canOpenBreakpointSplitViewFromTableRow;
+//# sourceMappingURL=breakpointSplitViewFromTableRow.js.map

package/dist/SvInspectorView/models/breakpointSplitViewFromTableRow.js.map

@@ -0,0 +1 @@
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package/dist/index.d.ts

@@ -0,0 +1,7 @@
+import PluginManager from '@jbrowse/core/PluginManager';
+import Plugin from '@jbrowse/core/Plugin';
+export default class SvInspectorViewPlugin extends Plugin {
+    name: string;
+    install(pluginManager: PluginManager): void;
+    configure(pluginManager: PluginManager): void;
+}

package/dist/index.js

@@ -0,0 +1,35 @@
+"use strict";
+var __importDefault = (this && this.__importDefault) || function (mod) {
+    return (mod && mod.__esModule) ? mod : { "default": mod };
+};
+Object.defineProperty(exports, "__esModule", { value: true });
+const Plugin_1 = __importDefault(require("@jbrowse/core/Plugin"));
+const types_1 = require("@jbrowse/core/util/types");
+// icons
+const TableChart_1 = __importDefault(require("@mui/icons-material/TableChart"));
+// locals
+const SvInspectorView_1 = __importDefault(require("./SvInspectorView"));
+const LaunchSvInspectorView_1 = __importDefault(require("./LaunchSvInspectorView"));
+class SvInspectorViewPlugin extends Plugin_1.default {
+    constructor() {
+        super(...arguments);
+        this.name = 'SvInspectorViewPlugin';
+    }
+    install(pluginManager) {
+        (0, SvInspectorView_1.default)(pluginManager);
+        (0, LaunchSvInspectorView_1.default)(pluginManager);
+    }
+    configure(pluginManager) {
+        if ((0, types_1.isAbstractMenuManager)(pluginManager.rootModel)) {
+            pluginManager.rootModel.appendToSubMenu(['Add'], {
+                label: 'SV inspector',
+                icon: TableChart_1.default,
+                onClick: (session) => {
+                    session.addView('SvInspectorView', {});
+                },
+            });
+        }
+    }
+}
+exports.default = SvInspectorViewPlugin;
+//# sourceMappingURL=index.js.map

package/dist/index.js.map

@@ -0,0 +1 @@
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package/esm/LaunchSvInspectorView/index.d.ts

@@ -0,0 +1,3 @@
+import PluginManager from '@jbrowse/core/PluginManager';
+declare const _default: (pluginManager: PluginManager) => void;
+export default _default;

package/esm/LaunchSvInspectorView/index.js

@@ -0,0 +1,25 @@
+export default (pluginManager) => {
+    pluginManager.addToExtensionPoint('LaunchView-SvInspectorView', 
+    // @ts-expect-error
+    async ({ session, assembly, uri, fileType, }) => {
+        var _a, _b;
+        // add view, make typescript happy with return type
+        const view = session.addView('SvInspectorView');
+        if (!view) {
+            throw new Error('Failed to initialize view');
+        }
+        const exts = uri.split('.');
+        let ext = (_a = exts === null || exts === void 0 ? void 0 : exts.pop()) === null || _a === void 0 ? void 0 : _a.toUpperCase();
+        if (ext === 'GZ') {
+            ext = (_b = exts === null || exts === void 0 ? void 0 : exts.pop()) === null || _b === void 0 ? void 0 : _b.toUpperCase();
+        }
+        view.spreadsheetView.importWizard.setFileType(fileType || ext || '');
+        view.spreadsheetView.importWizard.setSelectedAssemblyName(assembly);
+        view.spreadsheetView.importWizard.setFileSource({
+            uri,
+            locationType: 'UriLocation',
+        });
+        await view.spreadsheetView.importWizard.import(assembly);
+    });
+};
+//# sourceMappingURL=index.js.map

package/esm/LaunchSvInspectorView/index.js.map

@@ -0,0 +1 @@
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package/esm/SvInspectorView/components/CircularViewOptions.d.ts

@@ -0,0 +1,6 @@
+import React from 'react';
+import { SvInspectorViewModel } from '../models/SvInspectorView';
+declare const CircularViewOptions: ({ svInspector, }: {
+    svInspector: SvInspectorViewModel;
+}) => React.JSX.Element;
+export default CircularViewOptions;

package/esm/SvInspectorView/components/CircularViewOptions.js

@@ -0,0 +1,17 @@
+import React from 'react';
+import { observer } from 'mobx-react';
+import { Grid, FormControlLabel, Checkbox } from '@mui/material';
+import { makeStyles } from 'tss-react/mui';
+const useStyles = makeStyles()(theme => ({
+    circularViewOptions: {
+        padding: theme.spacing(1),
+    },
+}));
+const CircularViewOptions = observer(function ({ svInspector, }) {
+    const { classes } = useStyles();
+    return (React.createElement(Grid, { container: true, className: classes.circularViewOptions, style: { height: svInspector.circularViewOptionsBarHeight } },
+        React.createElement(Grid, { item: true },
+            React.createElement(FormControlLabel, { control: React.createElement(Checkbox, { checked: svInspector.onlyDisplayRelevantRegionsInCircularView, onChange: e => svInspector.setOnlyDisplayRelevantRegionsInCircularView(e.target.checked) }), label: "show only regions with data" }))));
+});
+export default CircularViewOptions;
+//# sourceMappingURL=CircularViewOptions.js.map