@jbrowse/plugin-linear-genome-view 2.7.2 → 2.8.0

package/dist/BaseLinearDisplay/models/BaseLinearDisplayModel.d.ts

@@ -69,7 +69,11 @@ export declare const BaseLinearDisplay: import("mobx-state-tree").IModelType<{
         setMessage(messageText: string): void;
         setRendered(props: {
             reactElement: React.ReactElement<any, string | React.JSXElementConstructor<any>>;
-            features: Map<string, Feature>;
+            features: Map<string, Feature>; /**
+             * #getter
+             * a CompositeMap of `featureId -> feature obj` that
+             * just looks in all the block data for that feature
+             */
             layout: any;
             maxHeightReached: boolean;
             renderProps: any;
@@ -128,7 +132,9 @@ export declare const BaseLinearDisplay: import("mobx-state-tree").IModelType<{
             message: string | undefined;
         }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
         onHorizontalScroll?: Function | undefined;
-        blockState?: Record<string, any> | undefined;
+        blockState?: Record<string, any> | undefined; /**
+         * #property
+         */
     }>;
     readonly DisplayBlurb: React.FC<{
         model: {
@@ -136,7 +142,9 @@ export declare const BaseLinearDisplay: import("mobx-state-tree").IModelType<{
             type: string;
             rpcDriverName: string | undefined;
         } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
-            rendererTypeName: string;
+            rendererTypeName: string; /**
+             * #getter
+             */
             error: unknown;
             message: string | undefined;
         } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
@@ -144,9 +152,7 @@ export declare const BaseLinearDisplay: import("mobx-state-tree").IModelType<{
             type: import("mobx-state-tree").ISimpleType<string>;
             rpcDriverName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
         }, {
-            rendererTypeName: string; /**
-             * #getter
-             */
+            rendererTypeName: string;
             error: unknown;
             message: string | undefined;
         }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
@@ -179,10 +185,7 @@ export declare const BaseLinearDisplay: import("mobx-state-tree").IModelType<{
 } & {
     readonly currentBytesRequested: number;
     readonly currentFeatureScreenDensity: number;
-    readonly maxFeatureScreenDensity: any; /**
-     * #property
-     * updated via autorun
-     */
+    readonly maxFeatureScreenDensity: any;
     readonly featureDensityStatsReady: boolean;
     readonly maxAllowableBytes: number;
 } & {
@@ -358,7 +361,11 @@ export declare const BaseLinearDisplay: import("mobx-state-tree").IModelType<{
         setMessage(messageText: string): void;
         setRendered(props: {
             reactElement: React.ReactElement<any, string | React.JSXElementConstructor<any>>;
-            features: Map<string, Feature>;
+            features: Map<string, Feature>; /**
+             * #getter
+             * a CompositeMap of `featureId -> feature obj` that
+             * just looks in all the block data for that feature
+             */
             layout: any;
             maxHeightReached: boolean;
             renderProps: any;

package/dist/BaseLinearDisplay/models/BaseLinearDisplayModel.js

@@ -1,4 +1,27 @@
 "use strict";
+var __createBinding = (this && this.__createBinding) || (Object.create ? (function(o, m, k, k2) {
+    if (k2 === undefined) k2 = k;
+    var desc = Object.getOwnPropertyDescriptor(m, k);
+    if (!desc || ("get" in desc ? !m.__esModule : desc.writable || desc.configurable)) {
+      desc = { enumerable: true, get: function() { return m[k]; } };
+    }
+    Object.defineProperty(o, k2, desc);
+}) : (function(o, m, k, k2) {
+    if (k2 === undefined) k2 = k;
+    o[k2] = m[k];
+}));
+var __setModuleDefault = (this && this.__setModuleDefault) || (Object.create ? (function(o, v) {
+    Object.defineProperty(o, "default", { enumerable: true, value: v });
+}) : function(o, v) {
+    o["default"] = v;
+});
+var __importStar = (this && this.__importStar) || function (mod) {
+    if (mod && mod.__esModule) return mod;
+    var result = {};
+    if (mod != null) for (var k in mod) if (k !== "default" && Object.prototype.hasOwnProperty.call(mod, k)) __createBinding(result, mod, k);
+    __setModuleDefault(result, mod);
+    return result;
+};
 var __importDefault = (this && this.__importDefault) || function (mod) {
     return (mod && mod.__esModule) ? mod : { "default": mod };
 };
@@ -16,7 +39,6 @@ const MenuOpen_1 = __importDefault(require("@mui/icons-material/MenuOpen"));
 const BaseLinearDisplay_1 = require("../components/BaseLinearDisplay");
 const serverSideRenderedBlock_1 = __importDefault(require("./serverSideRenderedBlock"));
 const configSchema_1 = __importDefault(require("./configSchema"));
-const renderSvg_1 = __importDefault(require("./renderSvg"));
 const TrackHeightMixin_1 = __importDefault(require("./TrackHeightMixin"));
 const FeatureDensityMixin_1 = __importDefault(require("./FeatureDensityMixin"));
 /**
@@ -296,7 +318,8 @@ function stateModelFactory() {
          * #method
          */
         async renderSvg(opts) {
-            return (0, renderSvg_1.default)(self, opts);
+            const { renderBaseLinearDisplaySvg } = await Promise.resolve().then(() => __importStar(require('./renderSvg')));
+            return renderBaseLinearDisplaySvg(self, opts);
         },
         afterAttach() {
             // watch the parent's blocks to update our block state when they change,

package/dist/BaseLinearDisplay/models/renderSvg.d.ts

@@ -2,7 +2,7 @@ import React from 'react';
 import { ThemeOptions } from '@mui/material';
 import { ExportSvgOptions } from '../../LinearGenomeView';
 import { BaseLinearDisplayModel } from './BaseLinearDisplayModel';
-export default function renderBaseLinearDisplaySvg(self: BaseLinearDisplayModel, opts: ExportSvgOptions & {
+export declare function renderBaseLinearDisplaySvg(self: BaseLinearDisplayModel, opts: ExportSvgOptions & {
     overrideHeight: number;
     theme: ThemeOptions;
 }): Promise<React.JSX.Element>;

package/dist/BaseLinearDisplay/models/renderSvg.js

@@ -26,6 +26,7 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
     return (mod && mod.__esModule) ? mod : { "default": mod };
 };
 Object.defineProperty(exports, "__esModule", { value: true });
+exports.renderBaseLinearDisplaySvg = void 0;
 const react_1 = __importDefault(require("react"));
 const util_1 = require("@jbrowse/core/util");
 const serverSideRenderedBlock_1 = __importStar(require("./serverSideRenderedBlock"));
@@ -79,4 +80,4 @@ async function renderBaseLinearDisplaySvg(self, opts) {
                     react_1.default.createElement(util_1.ReactRendering, { rendering: rendering })))));
     })));
 }
-exports.default = renderBaseLinearDisplaySvg;
+exports.renderBaseLinearDisplaySvg = renderBaseLinearDisplaySvg;

package/dist/LinearBasicDisplay/model.d.ts

@@ -219,7 +219,9 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
     featureIdUnderMouse: string | undefined;
     contextMenuFeature: import("@jbrowse/core/util").Feature | undefined;
 } & {
-    readonly blockType: "dynamicBlocks" | "staticBlocks";
+    readonly blockType: "dynamicBlocks" | "staticBlocks"; /**
+     * #getter
+     */
     readonly blockDefinitions: import("@jbrowse/core/util/blockTypes").BlockSet;
 } & {
     readonly renderDelay: number;

package/dist/LinearGenomeView/components/SearchBox.js

@@ -17,6 +17,11 @@ const useStyles = (0, mui_1.makeStyles)()(() => ({
         minWidth: 100,
     },
 }));
+function checkRef(str, allRefs) {
+    const [ref, rest] = (0, util_2.splitLast)(str, ':');
+    return (allRefs.includes(str) ||
+        (allRefs.includes(ref) && !Number.isNaN(Number.parseInt(rest, 10))));
+}
 const SearchBox = (0, mobx_react_1.observer)(function ({ model, showHelp, }) {
     const { classes } = useStyles();
     const theme = (0, material_1.useTheme)();
@@ -44,38 +49,34 @@ const SearchBox = (0, mobx_react_1.observer)(function ({ model, showHelp, }) {
     async function handleSelectedRegion(option) {
         var _a;
         try {
+            const input = option.getLabel();
+            const allRefs = (assembly === null || assembly === void 0 ? void 0 : assembly.allRefNamesWithLowerCase) || [];
             if (option.hasLocation()) {
                 await navToOption(option);
             }
             else if ((_a = option.results) === null || _a === void 0 ? void 0 : _a.length) {
                 model.setSearchResults(option.results, option.getLabel());
             }
+            else if (input.split(' ').every(entry => checkRef(entry, allRefs))) {
+                await model.navToLocString(input, assemblyName);
+            }
             else {
-                const input = option.getLabel();
-                const [ref, rest] = (0, util_2.splitLast)(input, ':');
-                const allRefs = (assembly === null || assembly === void 0 ? void 0 : assembly.allRefNamesWithLowerCase) || [];
-                if (allRefs.includes(input) ||
-                    (allRefs.includes(ref) && !Number.isNaN(Number.parseInt(rest, 10)))) {
-                    await model.navToLocString(input, assemblyName);
+                const results = await (0, util_2.fetchResults)({
+                    queryString: input,
+                    searchType: 'exact',
+                    searchScope,
+                    rankSearchResults,
+                    textSearchManager,
+                    assembly,
+                });
+                if (results.length > 1) {
+                    model.setSearchResults(results, input.toLowerCase());
+                }
+                else if (results.length === 1) {
+                    await navToOption(results[0]);
                 }
                 else {
-                    const results = await (0, util_2.fetchResults)({
-                        queryString: input,
-                        searchType: 'exact',
-                        searchScope,
-                        rankSearchResults,
-                        textSearchManager,
-                        assembly,
-                    });
-                    if (results.length > 1) {
-                        model.setSearchResults(results, input.toLowerCase());
-                    }
-                    else if (results.length === 1) {
-                        await navToOption(results[0]);
-                    }
-                    else {
-                        await model.navToLocString(input, assemblyName);
-                    }
+                    await model.navToLocString(input, assemblyName);
                 }
             }
         }

package/esm/BaseLinearDisplay/models/BaseLinearDisplayModel.d.ts

@@ -69,7 +69,11 @@ export declare const BaseLinearDisplay: import("mobx-state-tree").IModelType<{
         setMessage(messageText: string): void;
         setRendered(props: {
             reactElement: React.ReactElement<any, string | React.JSXElementConstructor<any>>;
-            features: Map<string, Feature>;
+            features: Map<string, Feature>; /**
+             * #getter
+             * a CompositeMap of `featureId -> feature obj` that
+             * just looks in all the block data for that feature
+             */
             layout: any;
             maxHeightReached: boolean;
             renderProps: any;
@@ -128,7 +132,9 @@ export declare const BaseLinearDisplay: import("mobx-state-tree").IModelType<{
             message: string | undefined;
         }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
         onHorizontalScroll?: Function | undefined;
-        blockState?: Record<string, any> | undefined;
+        blockState?: Record<string, any> | undefined; /**
+         * #property
+         */
     }>;
     readonly DisplayBlurb: React.FC<{
         model: {
@@ -136,7 +142,9 @@ export declare const BaseLinearDisplay: import("mobx-state-tree").IModelType<{
             type: string;
             rpcDriverName: string | undefined;
         } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
-            rendererTypeName: string;
+            rendererTypeName: string; /**
+             * #getter
+             */
             error: unknown;
             message: string | undefined;
         } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
@@ -144,9 +152,7 @@ export declare const BaseLinearDisplay: import("mobx-state-tree").IModelType<{
             type: import("mobx-state-tree").ISimpleType<string>;
             rpcDriverName: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
         }, {
-            rendererTypeName: string; /**
-             * #getter
-             */
+            rendererTypeName: string;
             error: unknown;
             message: string | undefined;
         }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
@@ -179,10 +185,7 @@ export declare const BaseLinearDisplay: import("mobx-state-tree").IModelType<{
 } & {
     readonly currentBytesRequested: number;
     readonly currentFeatureScreenDensity: number;
-    readonly maxFeatureScreenDensity: any; /**
-     * #property
-     * updated via autorun
-     */
+    readonly maxFeatureScreenDensity: any;
     readonly featureDensityStatsReady: boolean;
     readonly maxAllowableBytes: number;
 } & {
@@ -358,7 +361,11 @@ export declare const BaseLinearDisplay: import("mobx-state-tree").IModelType<{
         setMessage(messageText: string): void;
         setRendered(props: {
             reactElement: React.ReactElement<any, string | React.JSXElementConstructor<any>>;
-            features: Map<string, Feature>;
+            features: Map<string, Feature>; /**
+             * #getter
+             * a CompositeMap of `featureId -> feature obj` that
+             * just looks in all the block data for that feature
+             */
             layout: any;
             maxHeightReached: boolean;
             renderProps: any;

package/esm/BaseLinearDisplay/models/BaseLinearDisplayModel.js

@@ -10,7 +10,6 @@ import MenuOpenIcon from '@mui/icons-material/MenuOpen';
 import { Tooltip } from '../components/BaseLinearDisplay';
 import BlockState from './serverSideRenderedBlock';
 import configSchema from './configSchema';
-import renderBaseLinearDisplaySvg from './renderSvg';
 import TrackHeightMixin from './TrackHeightMixin';
 import FeatureDensityMixin from './FeatureDensityMixin';
 /**
@@ -290,6 +289,7 @@ function stateModelFactory() {
          * #method
          */
         async renderSvg(opts) {
+            const { renderBaseLinearDisplaySvg } = await import('./renderSvg');
             return renderBaseLinearDisplaySvg(self, opts);
         },
         afterAttach() {

package/esm/BaseLinearDisplay/models/renderSvg.d.ts

@@ -2,7 +2,7 @@ import React from 'react';
 import { ThemeOptions } from '@mui/material';
 import { ExportSvgOptions } from '../../LinearGenomeView';
 import { BaseLinearDisplayModel } from './BaseLinearDisplayModel';
-export default function renderBaseLinearDisplaySvg(self: BaseLinearDisplayModel, opts: ExportSvgOptions & {
+export declare function renderBaseLinearDisplaySvg(self: BaseLinearDisplayModel, opts: ExportSvgOptions & {
     overrideHeight: number;
     theme: ThemeOptions;
 }): Promise<React.JSX.Element>;

package/esm/BaseLinearDisplay/models/renderSvg.js

@@ -2,7 +2,7 @@ import React from 'react';
 import { getContainingView, getViewParams, ReactRendering, } from '@jbrowse/core/util';
 import BlockState, { renderBlockData } from './serverSideRenderedBlock';
 import { getId } from './util';
-export default async function renderBaseLinearDisplaySvg(self, opts) {
+export async function renderBaseLinearDisplaySvg(self, opts) {
     const { height, id } = self;
     const { overrideHeight } = opts;
     const view = getContainingView(self);

package/esm/LinearBasicDisplay/model.d.ts

@@ -219,7 +219,9 @@ declare function stateModelFactory(configSchema: AnyConfigurationSchemaType): im
     featureIdUnderMouse: string | undefined;
     contextMenuFeature: import("@jbrowse/core/util").Feature | undefined;
 } & {
-    readonly blockType: "dynamicBlocks" | "staticBlocks";
+    readonly blockType: "dynamicBlocks" | "staticBlocks"; /**
+     * #getter
+     */
     readonly blockDefinitions: import("@jbrowse/core/util/blockTypes").BlockSet;
 } & {
     readonly renderDelay: number;

package/esm/LinearGenomeView/components/SearchBox.js

@@ -12,6 +12,11 @@ const useStyles = makeStyles()(() => ({
         minWidth: 100,
     },
 }));
+function checkRef(str, allRefs) {
+    const [ref, rest] = splitLast(str, ':');
+    return (allRefs.includes(str) ||
+        (allRefs.includes(ref) && !Number.isNaN(Number.parseInt(rest, 10))));
+}
 const SearchBox = observer(function ({ model, showHelp, }) {
     const { classes } = useStyles();
     const theme = useTheme();
@@ -39,38 +44,34 @@ const SearchBox = observer(function ({ model, showHelp, }) {
     async function handleSelectedRegion(option) {
         var _a;
         try {
+            const input = option.getLabel();
+            const allRefs = (assembly === null || assembly === void 0 ? void 0 : assembly.allRefNamesWithLowerCase) || [];
             if (option.hasLocation()) {
                 await navToOption(option);
             }
             else if ((_a = option.results) === null || _a === void 0 ? void 0 : _a.length) {
                 model.setSearchResults(option.results, option.getLabel());
             }
+            else if (input.split(' ').every(entry => checkRef(entry, allRefs))) {
+                await model.navToLocString(input, assemblyName);
+            }
             else {
-                const input = option.getLabel();
-                const [ref, rest] = splitLast(input, ':');
-                const allRefs = (assembly === null || assembly === void 0 ? void 0 : assembly.allRefNamesWithLowerCase) || [];
-                if (allRefs.includes(input) ||
-                    (allRefs.includes(ref) && !Number.isNaN(Number.parseInt(rest, 10)))) {
-                    await model.navToLocString(input, assemblyName);
+                const results = await fetchResults({
+                    queryString: input,
+                    searchType: 'exact',
+                    searchScope,
+                    rankSearchResults,
+                    textSearchManager,
+                    assembly,
+                });
+                if (results.length > 1) {
+                    model.setSearchResults(results, input.toLowerCase());
+                }
+                else if (results.length === 1) {
+                    await navToOption(results[0]);
                 }
                 else {
-                    const results = await fetchResults({
-                        queryString: input,
-                        searchType: 'exact',
-                        searchScope,
-                        rankSearchResults,
-                        textSearchManager,
-                        assembly,
-                    });
-                    if (results.length > 1) {
-                        model.setSearchResults(results, input.toLowerCase());
-                    }
-                    else if (results.length === 1) {
-                        await navToOption(results[0]);
-                    }
-                    else {
-                        await model.navToLocString(input, assemblyName);
-                    }
+                    await model.navToLocString(input, assemblyName);
                 }
             }
         }

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-linear-genome-view",
-  "version": "2.7.2",
+  "version": "2.8.0",
   "description": "JBrowse 2 linear genome view",
   "keywords": [
     "jbrowse",
@@ -65,5 +65,5 @@
     "access": "public"
   },
   "module": "esm/index.js",
-  "gitHead": "9052b295f2d322e729254457ed9fe2231fb22cce"
+  "gitHead": "ee8c2bdc8bd4f1a70b1eefda984f04a2830d9ca0"
 }