@jbrowse/plugin-linear-genome-view 2.1.0 → 2.1.3

package/dist/LinearGenomeView/index.js.map

@@ -1 +1 @@
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package/dist/LinearGenomeView/util.js

@@ -1,20 +1,4 @@
 "use strict";
-var __read = (this && this.__read) || function (o, n) {
-    var m = typeof Symbol === "function" && o[Symbol.iterator];
-    if (!m) return o;
-    var i = m.call(o), r, ar = [], e;
-    try {
-        while ((n === void 0 || n-- > 0) && !(r = i.next()).done) ar.push(r.value);
-    }
-    catch (error) { e = { error: error }; }
-    finally {
-        try {
-            if (r && !r.done && (m = i["return"])) m.call(i);
-        }
-        finally { if (e) throw e.error; }
-    }
-    return ar;
-};
 Object.defineProperty(exports, "__esModule", { value: true });
 exports.makeTicks = exports.chooseGridPitch = void 0;
 /**
@@ -24,9 +8,9 @@ exports.makeTicks = exports.chooseGridPitch = void 0;
  */
 function chooseGridPitch(scale, minMajorPitchPx, minMinorPitchPx) {
     scale = Math.abs(scale);
-    var minMajorPitchBp = minMajorPitchPx * scale;
-    var majorMagnitude = parseInt(Number(minMajorPitchBp).toExponential().split(/e/i)[1], 10);
-    var majorPitch = Math.pow(10, majorMagnitude);
+    const minMajorPitchBp = minMajorPitchPx * scale;
+    const majorMagnitude = parseInt(Number(minMajorPitchBp).toExponential().split(/e/i)[1], 10);
+    let majorPitch = 10 ** majorMagnitude;
     while (majorPitch < minMajorPitchBp) {
         majorPitch *= 2;
         if (majorPitch >= minMajorPitchBp) {
@@ -35,8 +19,8 @@ function chooseGridPitch(scale, minMajorPitchPx, minMinorPitchPx) {
         majorPitch *= 2.5;
     }
     majorPitch = Math.max(majorPitch, 5);
-    var majorPitchPx = majorPitch / scale;
-    var minorPitch = 0;
+    const majorPitchPx = majorPitch / scale;
+    let minorPitch = 0;
     if (!(majorPitch % 10) && majorPitchPx / 10 >= minMinorPitchPx) {
         minorPitch = majorPitch / 10;
     }
@@ -46,37 +30,34 @@ function chooseGridPitch(scale, minMajorPitchPx, minMinorPitchPx) {
     else if (!(majorPitch % 2) && majorPitchPx / 2 >= minMinorPitchPx) {
         minorPitch = majorPitch / 2;
     }
-    return { majorPitch: majorPitch, minorPitch: minorPitch };
+    return { majorPitch, minorPitch };
 }
 exports.chooseGridPitch = chooseGridPitch;
-function makeTicks(start, end, bpPerPx, emitMajor, emitMinor) {
-    var _a;
-    if (emitMajor === void 0) { emitMajor = true; }
-    if (emitMinor === void 0) { emitMinor = true; }
-    var gridPitch = chooseGridPitch(bpPerPx, 60, 15);
-    var minBase = start;
-    var maxBase = end;
+function makeTicks(start, end, bpPerPx, emitMajor = true, emitMinor = true) {
+    const gridPitch = chooseGridPitch(bpPerPx, 60, 15);
+    let minBase = start;
+    let maxBase = end;
     if (minBase === null || maxBase === null) {
         return [];
     }
     if (bpPerPx < 0) {
         ;
-        _a = __read([maxBase, minBase], 2), minBase = _a[0], maxBase = _a[1];
+        [minBase, maxBase] = [maxBase, minBase];
     }
     // add 20px additional on the right and left to allow us to draw the ends
     // of labels that lie a little outside our region
     minBase -= Math.abs(20 * bpPerPx) - 1;
     maxBase += Math.abs(20 * bpPerPx) + 1;
-    var iterPitch = gridPitch.minorPitch || gridPitch.majorPitch;
-    var index = 0;
-    var ticks = [];
-    for (var base = Math.ceil(minBase / iterPitch) * iterPitch; base < maxBase; base += iterPitch) {
+    const iterPitch = gridPitch.minorPitch || gridPitch.majorPitch;
+    let index = 0;
+    const ticks = [];
+    for (let base = Math.ceil(minBase / iterPitch) * iterPitch; base < maxBase; base += iterPitch) {
         if (emitMinor && base % (gridPitch.majorPitch * 2)) {
-            ticks.push({ type: 'minor', base: base - 1, index: index });
+            ticks.push({ type: 'minor', base: base - 1, index });
             index += 1;
         }
         else if (emitMajor && !(base % (gridPitch.majorPitch * 2))) {
-            ticks.push({ type: 'major', base: base - 1, index: index });
+            ticks.push({ type: 'major', base: base - 1, index });
             index += 1;
         }
     }

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+{"version":3,"file":"util.js","sourceRoot":"","sources":["../../src/LinearGenomeView/util.ts"],"names":[],"mappings":";;;AAAA;;;;GAIG;AACH,SAAgB,eAAe,CAC7B,KAAa,EACb,eAAuB,EACvB,eAAuB;IAEvB,KAAK,GAAG,IAAI,CAAC,GAAG,CAAC,KAAK,CAAC,CAAA;IACvB,MAAM,eAAe,GAAG,eAAe,GAAG,KAAK,CAAA;IAC/C,MAAM,cAAc,GAAG,QAAQ,CAC7B,MAAM,CAAC,eAAe,CAAC,CAAC,aAAa,EAAE,CAAC,KAAK,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC,EACtD,EAAE,CACH,CAAA;IAED,IAAI,UAAU,GAAG,EAAE,IAAI,cAAc,CAAA;IACrC,OAAO,UAAU,GAAG,eAAe,EAAE;QACnC,UAAU,IAAI,CAAC,CAAA;QACf,IAAI,UAAU,IAAI,eAAe,EAAE;YACjC,MAAK;SACN;QACD,UAAU,IAAI,GAAG,CAAA;KAClB;IAED,UAAU,GAAG,IAAI,CAAC,GAAG,CAAC,UAAU,EAAE,CAAC,CAAC,CAAA;IAEpC,MAAM,YAAY,GAAG,UAAU,GAAG,KAAK,CAAA;IAEvC,IAAI,UAAU,GAAG,CAAC,CAAA;IAClB,IAAI,CAAC,CAAC,UAAU,GAAG,EAAE,CAAC,IAAI,YAAY,GAAG,EAAE,IAAI,eAAe,EAAE;QAC9D,UAAU,GAAG,UAAU,GAAG,EAAE,CAAA;KAC7B;SAAM,IAAI,CAAC,CAAC,UAAU,GAAG,CAAC,CAAC,IAAI,YAAY,GAAG,CAAC,IAAI,eAAe,EAAE;QACnE,UAAU,GAAG,UAAU,GAAG,CAAC,CAAA;KAC5B;SAAM,IAAI,CAAC,CAAC,UAAU,GAAG,CAAC,CAAC,IAAI,YAAY,GAAG,CAAC,IAAI,eAAe,EAAE;QACnE,UAAU,GAAG,UAAU,GAAG,CAAC,CAAA;KAC5B;IAED,OAAO,EAAE,UAAU,EAAE,UAAU,EAAE,CAAA;AACnC,CAAC;AAnCD,0CAmCC;AAED,SAAgB,SAAS,CACvB,KAAa,EACb,GAAW,EACX,OAAe,EACf,SAAS,GAAG,IAAI,EAChB,SAAS,GAAG,IAAI;IAEhB,MAAM,SAAS,GAAG,eAAe,CAAC,OAAO,EAAE,EAAE,EAAE,EAAE,CAAC,CAAA;IAElD,IAAI,OAAO,GAAG,KAAK,CAAA;IACnB,IAAI,OAAO,GAAG,GAAG,CAAA;IACjB,IAAI,OAAO,KAAK,IAAI,IAAI,OAAO,KAAK,IAAI,EAAE;QACxC,OAAO,EAAE,CAAA;KACV;IAED,IAAI,OAAO,GAAG,CAAC,EAAE;QACf,CAAC;QAAA,CAAC,OAAO,EAAE,OAAO,CAAC,GAAG,CAAC,OAAO,EAAE,OAAO,CAAC,CAAA;KACzC;IAED,yEAAyE;IACzE,iDAAiD;IACjD,OAAO,IAAI,IAAI,CAAC,GAAG,CAAC,EAAE,GAAG,OAAO,CAAC,GAAG,CAAC,CAAA;IACrC,OAAO,IAAI,IAAI,CAAC,GAAG,CAAC,EAAE,GAAG,OAAO,CAAC,GAAG,CAAC,CAAA;IAErC,MAAM,SAAS,GAAG,SAAS,CAAC,UAAU,IAAI,SAAS,CAAC,UAAU,CAAA;IAC9D,IAAI,KAAK,GAAG,CAAC,CAAA;IACb,MAAM,KAAK,GAAG,EAAE,CAAA;IAChB,KACE,IAAI,IAAI,GAAG,IAAI,CAAC,IAAI,CAAC,OAAO,GAAG,SAAS,CAAC,GAAG,SAAS,EACrD,IAAI,GAAG,OAAO,EACd,IAAI,IAAI,SAAS,EACjB;QACA,IAAI,SAAS,IAAI,IAAI,GAAG,CAAC,SAAS,CAAC,UAAU,GAAG,CAAC,CAAC,EAAE;YAClD,KAAK,CAAC,IAAI,CAAC,EAAE,IAAI,EAAE,OAAO,EAAE,IAAI,EAAE,IAAI,GAAG,CAAC,EAAE,KAAK,EAAE,CAAC,CAAA;YACpD,KAAK,IAAI,CAAC,CAAA;SACX;aAAM,IAAI,SAAS,IAAI,CAAC,CAAC,IAAI,GAAG,CAAC,SAAS,CAAC,UAAU,GAAG,CAAC,CAAC,CAAC,EAAE;YAC5D,KAAK,CAAC,IAAI,CAAC,EAAE,IAAI,EAAE,OAAO,EAAE,IAAI,EAAE,IAAI,GAAG,CAAC,EAAE,KAAK,EAAE,CAAC,CAAA;YACpD,KAAK,IAAI,CAAC,CAAA;SACX;KACF;IACD,OAAO,KAAK,CAAA;AACd,CAAC;AAzCD,8BAyCC"}

package/dist/index.js

@@ -1,19 +1,4 @@
 "use strict";
-var __extends = (this && this.__extends) || (function () {
-    var extendStatics = function (d, b) {
-        extendStatics = Object.setPrototypeOf ||
-            ({ __proto__: [] } instanceof Array && function (d, b) { d.__proto__ = b; }) ||
-            function (d, b) { for (var p in b) if (Object.prototype.hasOwnProperty.call(b, p)) d[p] = b[p]; };
-        return extendStatics(d, b);
-    };
-    return function (d, b) {
-        if (typeof b !== "function" && b !== null)
-            throw new TypeError("Class extends value " + String(b) + " is not a constructor or null");
-        extendStatics(d, b);
-        function __() { this.constructor = d; }
-        d.prototype = b === null ? Object.create(b) : (__.prototype = b.prototype, new __());
-    };
-})();
 var __createBinding = (this && this.__createBinding) || (Object.create ? (function(o, m, k, k2) {
     if (k2 === undefined) k2 = k;
     var desc = Object.getOwnPropertyDescriptor(m, k);
@@ -37,200 +22,144 @@ var __importStar = (this && this.__importStar) || function (mod) {
     __setModuleDefault(result, mod);
     return result;
 };
-var __awaiter = (this && this.__awaiter) || function (thisArg, _arguments, P, generator) {
-    function adopt(value) { return value instanceof P ? value : new P(function (resolve) { resolve(value); }); }
-    return new (P || (P = Promise))(function (resolve, reject) {
-        function fulfilled(value) { try { step(generator.next(value)); } catch (e) { reject(e); } }
-        function rejected(value) { try { step(generator["throw"](value)); } catch (e) { reject(e); } }
-        function step(result) { result.done ? resolve(result.value) : adopt(result.value).then(fulfilled, rejected); }
-        step((generator = generator.apply(thisArg, _arguments || [])).next());
-    });
-};
-var __generator = (this && this.__generator) || function (thisArg, body) {
-    var _ = { label: 0, sent: function() { if (t[0] & 1) throw t[1]; return t[1]; }, trys: [], ops: [] }, f, y, t, g;
-    return g = { next: verb(0), "throw": verb(1), "return": verb(2) }, typeof Symbol === "function" && (g[Symbol.iterator] = function() { return this; }), g;
-    function verb(n) { return function (v) { return step([n, v]); }; }
-    function step(op) {
-        if (f) throw new TypeError("Generator is already executing.");
-        while (_) try {
-            if (f = 1, y && (t = op[0] & 2 ? y["return"] : op[0] ? y["throw"] || ((t = y["return"]) && t.call(y), 0) : y.next) && !(t = t.call(y, op[1])).done) return t;
-            if (y = 0, t) op = [op[0] & 2, t.value];
-            switch (op[0]) {
-                case 0: case 1: t = op; break;
-                case 4: _.label++; return { value: op[1], done: false };
-                case 5: _.label++; y = op[1]; op = [0]; continue;
-                case 7: op = _.ops.pop(); _.trys.pop(); continue;
-                default:
-                    if (!(t = _.trys, t = t.length > 0 && t[t.length - 1]) && (op[0] === 6 || op[0] === 2)) { _ = 0; continue; }
-                    if (op[0] === 3 && (!t || (op[1] > t[0] && op[1] < t[3]))) { _.label = op[1]; break; }
-                    if (op[0] === 6 && _.label < t[1]) { _.label = t[1]; t = op; break; }
-                    if (t && _.label < t[2]) { _.label = t[2]; _.ops.push(op); break; }
-                    if (t[2]) _.ops.pop();
-                    _.trys.pop(); continue;
-            }
-            op = body.call(thisArg, _);
-        } catch (e) { op = [6, e]; y = 0; } finally { f = t = 0; }
-        if (op[0] & 5) throw op[1]; return { value: op[0] ? op[1] : void 0, done: true };
-    }
-};
 var __importDefault = (this && this.__importDefault) || function (mod) {
     return (mod && mod.__esModule) ? mod : { "default": mod };
 };
 Object.defineProperty(exports, "__esModule", { value: true });
 exports.SearchBox = exports.RefNameAutocomplete = exports.BaseLinearDisplay = exports.BaseLinearDisplayComponent = exports.renderToSvg = exports.linearBasicDisplayModelFactory = exports.linearBasicDisplayConfigSchemaFactory = exports.linearBareDisplayConfigSchemaFactory = exports.baseLinearDisplayConfigSchema = void 0;
-var react_1 = require("react");
-var mobx_1 = require("mobx");
-var configuration_1 = require("@jbrowse/core/configuration");
-var models_1 = require("@jbrowse/core/pluggableElementTypes/models");
-var TrackType_1 = __importDefault(require("@jbrowse/core/pluggableElementTypes/TrackType"));
-var DisplayType_1 = __importDefault(require("@jbrowse/core/pluggableElementTypes/DisplayType"));
-var ViewType_1 = __importDefault(require("@jbrowse/core/pluggableElementTypes/ViewType"));
-var Plugin_1 = __importDefault(require("@jbrowse/core/Plugin"));
-var util_1 = require("@jbrowse/core/util");
-var LineStyle_1 = __importDefault(require("@mui/icons-material/LineStyle"));
-var BaseLinearDisplay_1 = require("./BaseLinearDisplay");
+const react_1 = require("react");
+const mobx_1 = require("mobx");
+const configuration_1 = require("@jbrowse/core/configuration");
+const models_1 = require("@jbrowse/core/pluggableElementTypes/models");
+const TrackType_1 = __importDefault(require("@jbrowse/core/pluggableElementTypes/TrackType"));
+const DisplayType_1 = __importDefault(require("@jbrowse/core/pluggableElementTypes/DisplayType"));
+const ViewType_1 = __importDefault(require("@jbrowse/core/pluggableElementTypes/ViewType"));
+const Plugin_1 = __importDefault(require("@jbrowse/core/Plugin"));
+const util_1 = require("@jbrowse/core/util");
+const LineStyle_1 = __importDefault(require("@mui/icons-material/LineStyle"));
+const BaseLinearDisplay_1 = require("./BaseLinearDisplay");
 Object.defineProperty(exports, "BaseLinearDisplay", { enumerable: true, get: function () { return BaseLinearDisplay_1.BaseLinearDisplay; } });
 Object.defineProperty(exports, "BaseLinearDisplayComponent", { enumerable: true, get: function () { return BaseLinearDisplay_1.BaseLinearDisplayComponent; } });
 Object.defineProperty(exports, "baseLinearDisplayConfigSchema", { enumerable: true, get: function () { return BaseLinearDisplay_1.baseLinearDisplayConfigSchema; } });
-var LinearBareDisplay_1 = require("./LinearBareDisplay");
+const LinearBareDisplay_1 = require("./LinearBareDisplay");
 Object.defineProperty(exports, "linearBareDisplayConfigSchemaFactory", { enumerable: true, get: function () { return LinearBareDisplay_1.configSchemaFactory; } });
-var LinearGenomeView_1 = require("./LinearGenomeView");
+const LinearGenomeView_1 = require("./LinearGenomeView");
 Object.defineProperty(exports, "renderToSvg", { enumerable: true, get: function () { return LinearGenomeView_1.renderToSvg; } });
 Object.defineProperty(exports, "RefNameAutocomplete", { enumerable: true, get: function () { return LinearGenomeView_1.RefNameAutocomplete; } });
 Object.defineProperty(exports, "SearchBox", { enumerable: true, get: function () { return LinearGenomeView_1.SearchBox; } });
-var LinearBasicDisplay_1 = require("./LinearBasicDisplay");
+const LinearBasicDisplay_1 = require("./LinearBasicDisplay");
 Object.defineProperty(exports, "linearBasicDisplayConfigSchemaFactory", { enumerable: true, get: function () { return LinearBasicDisplay_1.configSchema; } });
 Object.defineProperty(exports, "linearBasicDisplayModelFactory", { enumerable: true, get: function () { return LinearBasicDisplay_1.modelFactory; } });
-var LinearGenomeViewPlugin = /** @class */ (function (_super) {
-    __extends(LinearGenomeViewPlugin, _super);
-    function LinearGenomeViewPlugin() {
-        var _this = _super !== null && _super.apply(this, arguments) || this;
-        _this.name = 'LinearGenomeViewPlugin';
-        _this.exports = {
+class LinearGenomeViewPlugin extends Plugin_1.default {
+    constructor() {
+        super(...arguments);
+        this.name = 'LinearGenomeViewPlugin';
+        this.exports = {
             BaseLinearDisplayComponent: BaseLinearDisplay_1.BaseLinearDisplayComponent,
             BaseLinearDisplay: BaseLinearDisplay_1.BaseLinearDisplay,
             baseLinearDisplayConfigSchema: BaseLinearDisplay_1.baseLinearDisplayConfigSchema,
         };
-        return _this;
     }
-    LinearGenomeViewPlugin.prototype.install = function (pluginManager) {
-        var _this = this;
-        pluginManager.addTrackType(function () {
-            var configSchema = (0, configuration_1.ConfigurationSchema)('FeatureTrack', {}, {
+    install(pluginManager) {
+        pluginManager.addTrackType(() => {
+            const configSchema = (0, configuration_1.ConfigurationSchema)('FeatureTrack', {}, {
                 baseConfiguration: (0, models_1.createBaseTrackConfig)(pluginManager),
                 explicitIdentifier: 'trackId',
             });
             return new TrackType_1.default({
                 name: 'FeatureTrack',
-                configSchema: configSchema,
+                configSchema,
                 stateModel: (0, models_1.createBaseTrackModel)(pluginManager, 'FeatureTrack', configSchema),
             });
         });
-        pluginManager.addTrackType(function () {
-            var configSchema = (0, configuration_1.ConfigurationSchema)('BasicTrack', {}, {
+        pluginManager.addTrackType(() => {
+            const configSchema = (0, configuration_1.ConfigurationSchema)('BasicTrack', {}, {
                 baseConfiguration: (0, models_1.createBaseTrackConfig)(pluginManager),
                 explicitIdentifier: 'trackId',
             });
             return new TrackType_1.default({
                 name: 'BasicTrack',
-                configSchema: configSchema,
+                configSchema,
                 stateModel: (0, models_1.createBaseTrackModel)(pluginManager, 'BasicTrack', configSchema),
             });
         });
-        pluginManager.addDisplayType(function () {
-            var configSchema = (0, LinearBareDisplay_1.configSchemaFactory)(pluginManager);
+        pluginManager.addDisplayType(() => {
+            const configSchema = (0, LinearBareDisplay_1.configSchemaFactory)(pluginManager);
             return new DisplayType_1.default({
                 name: 'LinearBareDisplay',
-                configSchema: configSchema,
+                configSchema,
                 stateModel: (0, LinearBareDisplay_1.stateModelFactory)(configSchema),
                 trackType: 'BasicTrack',
                 viewType: 'LinearGenomeView',
                 ReactComponent: BaseLinearDisplay_1.BaseLinearDisplayComponent,
             });
         });
-        pluginManager.addDisplayType(function () {
-            var configSchema = (0, LinearBasicDisplay_1.configSchema)(pluginManager);
+        pluginManager.addDisplayType(() => {
+            const configSchema = (0, LinearBasicDisplay_1.configSchema)(pluginManager);
             return new DisplayType_1.default({
                 name: 'LinearBasicDisplay',
-                configSchema: configSchema,
+                configSchema,
                 stateModel: (0, LinearBasicDisplay_1.modelFactory)(configSchema),
                 trackType: 'FeatureTrack',
                 viewType: 'LinearGenomeView',
                 ReactComponent: BaseLinearDisplay_1.BaseLinearDisplayComponent,
             });
         });
-        pluginManager.addViewType(function () {
-            return new ViewType_1.default({
-                name: 'LinearGenomeView',
-                stateModel: (0, LinearGenomeView_1.stateModelFactory)(pluginManager),
-                ReactComponent: (0, react_1.lazy)(function () { return Promise.resolve().then(function () { return __importStar(require('./LinearGenomeView/components/LinearGenomeView')); }); }),
-            });
-        });
+        pluginManager.addViewType(() => new ViewType_1.default({
+            name: 'LinearGenomeView',
+            stateModel: (0, LinearGenomeView_1.stateModelFactory)(pluginManager),
+            ReactComponent: (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('./LinearGenomeView/components/LinearGenomeView')))),
+        }));
         pluginManager.addToExtensionPoint('LaunchView-LinearGenomeView', 
         // @ts-ignore
-        function (_a) {
-            var session = _a.session, assembly = _a.assembly, loc = _a.loc, _b = _a.tracks, tracks = _b === void 0 ? [] : _b;
-            return __awaiter(_this, void 0, void 0, function () {
-                var assemblyManager, view_1, asm, idsNotFound_1, e_1;
-                return __generator(this, function (_c) {
-                    switch (_c.label) {
-                        case 0:
-                            _c.trys.push([0, 3, , 4]);
-                            assemblyManager = session.assemblyManager;
-                            view_1 = session.addView('LinearGenomeView', {});
-                            return [4 /*yield*/, (0, mobx_1.when)(function () { return !!view_1.volatileWidth; })];
-                        case 1:
-                            _c.sent();
-                            if (!assembly) {
-                                throw new Error('No assembly provided when launching linear genome view');
-                            }
-                            return [4 /*yield*/, assemblyManager.waitForAssembly(assembly)];
-                        case 2:
-                            asm = _c.sent();
-                            if (!asm) {
-                                throw new Error("Assembly \"".concat(assembly, "\" not found when launching linear genome view"));
-                            }
-                            view_1.navToLocString(loc, assembly);
-                            idsNotFound_1 = [];
-                            tracks.forEach(function (track) {
-                                try {
-                                    view_1.showTrack(track);
-                                }
-                                catch (e) {
-                                    if ("".concat(e).match('Could not resolve identifier')) {
-                                        idsNotFound_1.push(track);
-                                    }
-                                    else {
-                                        throw e;
-                                    }
-                                }
-                            });
-                            if (idsNotFound_1.length) {
-                                throw new Error("Could not resolve identifiers: ".concat(idsNotFound_1.join(',')));
-                            }
-                            return [3 /*break*/, 4];
-                        case 3:
-                            e_1 = _c.sent();
-                            session.notify("".concat(e_1), 'error');
-                            throw e_1;
-                        case 4: return [2 /*return*/];
+        async ({ session, assembly, loc, tracks = [], }) => {
+            try {
+                const { assemblyManager } = session;
+                const view = session.addView('LinearGenomeView', {});
+                await (0, mobx_1.when)(() => !!view.volatileWidth);
+                if (!assembly) {
+                    throw new Error('No assembly provided when launching linear genome view');
+                }
+                const asm = await assemblyManager.waitForAssembly(assembly);
+                if (!asm) {
+                    throw new Error(`Assembly "${assembly}" not found when launching linear genome view`);
+                }
+                view.navToLocString(loc, assembly);
+                const idsNotFound = [];
+                tracks.forEach(track => {
+                    try {
+                        view.showTrack(track);
+                    }
+                    catch (e) {
+                        if (`${e}`.match('Could not resolve identifier')) {
+                            idsNotFound.push(track);
+                        }
+                        else {
+                            throw e;
+                        }
                     }
                 });
-            });
+                if (idsNotFound.length) {
+                    throw new Error(`Could not resolve identifiers: ${idsNotFound.join(',')}`);
+                }
+            }
+            catch (e) {
+                session.notify(`${e}`, 'error');
+                throw e;
+            }
         });
-    };
-    LinearGenomeViewPlugin.prototype.configure = function (pluginManager) {
+    }
+    configure(pluginManager) {
         if ((0, util_1.isAbstractMenuManager)(pluginManager.rootModel)) {
             pluginManager.rootModel.appendToSubMenu(['Add'], {
                 label: 'Linear genome view',
                 icon: LineStyle_1.default,
-                onClick: function (session) {
+                onClick: (session) => {
                     session.addView('LinearGenomeView', {});
                 },
             });
         }
-    };
-    return LinearGenomeViewPlugin;
-}(Plugin_1.default));
+    }
+}
 exports.default = LinearGenomeViewPlugin;
 //# sourceMappingURL=index.js.map

package/dist/index.js.map

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package/esm/LinearGenomeView/components/GetSequenceDialog.d.ts

@@ -0,0 +1,9 @@
+/// <reference types="react" />
+import { LinearGenomeViewModel } from '..';
+declare type LGV = LinearGenomeViewModel;
+declare function SequenceDialog({ model, handleClose, }: {
+    model: LGV;
+    handleClose: () => void;
+}): JSX.Element;
+declare const _default: typeof SequenceDialog;
+export default _default;

package/esm/LinearGenomeView/components/{SequenceDialog.js → GetSequenceDialog.js}

@@ -12,9 +12,6 @@ import { ContentCopy as ContentCopyIcon } from '@jbrowse/core/ui/Icons';
 import CloseIcon from '@mui/icons-material/Close';
 import GetAppIcon from '@mui/icons-material/GetApp';
 const useStyles = makeStyles()(theme => ({
-    loadingMessage: {
-        padding: theme.spacing(5),
-    },
     closeButton: {
         position: 'absolute',
         right: theme.spacing(1),
@@ -106,10 +103,10 @@ function SequenceDialog({ model, handleClose, }) {
         };
     }, [model, session, regionsSelected, setSequence]);
     const sequenceTooLarge = sequence ? sequence.length > 1000000 : false;
-    return (React.createElement(Dialog, { "data-testid": "sequence-dialog", maxWidth: "xl", open: true, onClose: handleClose, "aria-labelledby": "alert-dialog-title", "aria-describedby": "alert-dialog-description" },
-        React.createElement(DialogTitle, { id: "alert-dialog-title" },
+    return (React.createElement(Dialog, { maxWidth: "xl", open: true, onClose: handleClose },
+        React.createElement(DialogTitle, null,
             "Reference sequence",
-            handleClose ? (React.createElement(IconButton, { "data-testid": "close-seqDialog", className: classes.closeButton, onClick: () => {
+            handleClose ? (React.createElement(IconButton, { className: classes.closeButton, onClick: () => {
                     handleClose();
                     model.setOffsets(undefined, undefined);
                 }, size: "large" },
@@ -144,4 +141,4 @@ function SequenceDialog({ model, handleClose, }) {
             React.createElement(Button, { onClick: handleClose, variant: "contained" }, "Close"))));
 }
 export default observer(SequenceDialog);
-//# sourceMappingURL=SequenceDialog.js.map
+//# sourceMappingURL=GetSequenceDialog.js.map