@jbrowse/core 3.0.1 → 3.0.2

package/BaseFeatureWidget/BaseFeatureDetail/BaseAttributes.d.ts

@@ -0,0 +1,8 @@
+import type { BaseCardProps, BaseProps } from '../types';
+export interface BaseInputProps extends BaseCardProps {
+    omit?: string[];
+    model: any;
+    descriptions?: Record<string, React.ReactNode>;
+    formatter?: (val: unknown, key: string) => React.ReactNode;
+}
+export default function BaseAttributes(props: BaseProps): import("react/jsx-runtime").JSX.Element;

package/BaseFeatureWidget/BaseFeatureDetail/BaseAttributes.js

@@ -0,0 +1,13 @@
+"use strict";
+var __importDefault = (this && this.__importDefault) || function (mod) {
+    return (mod && mod.__esModule) ? mod : { "default": mod };
+};
+Object.defineProperty(exports, "__esModule", { value: true });
+exports.default = BaseAttributes;
+const jsx_runtime_1 = require("react/jsx-runtime");
+const Attributes_1 = __importDefault(require("./Attributes"));
+const BaseCard_1 = __importDefault(require("./BaseCard"));
+function BaseAttributes(props) {
+    const { title = 'Attributes', feature } = props;
+    return ((0, jsx_runtime_1.jsx)(BaseCard_1.default, { ...props, title: title, children: (0, jsx_runtime_1.jsx)(Attributes_1.default, { ...props, attributes: feature }) }));
+}

package/BaseFeatureWidget/BaseFeatureDetail/BaseCoreDetails.d.ts

@@ -0,0 +1,2 @@
+import type { BaseProps } from '../types';
+export default function BaseCoreDetails(props: BaseProps): import("react/jsx-runtime").JSX.Element;

package/BaseFeatureWidget/BaseFeatureDetail/BaseCoreDetails.js

@@ -0,0 +1,13 @@
+"use strict";
+var __importDefault = (this && this.__importDefault) || function (mod) {
+    return (mod && mod.__esModule) ? mod : { "default": mod };
+};
+Object.defineProperty(exports, "__esModule", { value: true });
+exports.default = BaseCoreDetails;
+const jsx_runtime_1 = require("react/jsx-runtime");
+const BaseCard_1 = __importDefault(require("./BaseCard"));
+const CoreDetails_1 = __importDefault(require("./CoreDetails"));
+function BaseCoreDetails(props) {
+    const { title = 'Primary data' } = props;
+    return ((0, jsx_runtime_1.jsx)(BaseCard_1.default, { ...props, title: title, children: (0, jsx_runtime_1.jsx)(CoreDetails_1.default, { ...props }) }));
+}

package/BaseFeatureWidget/BaseFeatureDetail/index.d.ts

@@ -1,13 +1,7 @@
-import type { BaseCardProps, BaseProps } from '../types';
-export declare const BaseCoreDetails: (props: BaseProps) => import("react/jsx-runtime").JSX.Element;
-export declare const BaseAttributes: (props: BaseProps) => import("react/jsx-runtime").JSX.Element;
-export interface BaseInputProps extends BaseCardProps {
-    omit?: string[];
-    model: any;
-    descriptions?: Record<string, React.ReactNode>;
-    formatter?: (val: unknown, key: string) => React.ReactNode;
-}
+import type { BaseInputProps } from './types';
 declare const BaseFeatureDetail: ({ model }: BaseInputProps) => import("react/jsx-runtime").JSX.Element | null;
 export default BaseFeatureDetail;
 export { default as BaseCard } from './BaseCard';
+export { default as BaseAttributes } from './BaseAttributes';
+export { default as BaseCoreDetails } from './BaseCoreDetails';
 export { default as FeatureDetails } from './FeatureDetails';

package/BaseFeatureWidget/BaseFeatureDetail/index.js

@@ -3,26 +3,13 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
     return (mod && mod.__esModule) ? mod : { "default": mod };
 };
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.FeatureDetails = exports.BaseCard = exports.BaseAttributes = exports.BaseCoreDetails = void 0;
+exports.FeatureDetails = exports.BaseCoreDetails = exports.BaseAttributes = exports.BaseCard = void 0;
 const jsx_runtime_1 = require("react/jsx-runtime");
 const mobx_react_1 = require("mobx-react");
 const util_1 = require("./util");
 const util_2 = require("../util");
-const Attributes_1 = __importDefault(require("./Attributes"));
-const BaseCard_1 = __importDefault(require("./BaseCard"));
-const CoreDetails_1 = __importDefault(require("./CoreDetails"));
 const FeatureDetails_1 = __importDefault(require("./FeatureDetails"));
 const ui_1 = require("../../ui");
-const BaseCoreDetails = (props) => {
-    const { title = 'Primary data' } = props;
-    return ((0, jsx_runtime_1.jsx)(BaseCard_1.default, { ...props, title: title, children: (0, jsx_runtime_1.jsx)(CoreDetails_1.default, { ...props }) }));
-};
-exports.BaseCoreDetails = BaseCoreDetails;
-const BaseAttributes = (props) => {
-    const { feature } = props;
-    return ((0, jsx_runtime_1.jsx)(BaseCard_1.default, { ...props, title: "Attributes", children: (0, jsx_runtime_1.jsx)(Attributes_1.default, { ...props, attributes: feature }) }));
-};
-exports.BaseAttributes = BaseAttributes;
 const BaseFeatureDetail = (0, mobx_react_1.observer)(function ({ model }) {
     const { error, featureData } = model;
     if (error) {
@@ -37,7 +24,11 @@ const BaseFeatureDetail = (0, mobx_react_1.observer)(function ({ model }) {
     }
 });
 exports.default = BaseFeatureDetail;
-var BaseCard_2 = require("./BaseCard");
-Object.defineProperty(exports, "BaseCard", { enumerable: true, get: function () { return __importDefault(BaseCard_2).default; } });
+var BaseCard_1 = require("./BaseCard");
+Object.defineProperty(exports, "BaseCard", { enumerable: true, get: function () { return __importDefault(BaseCard_1).default; } });
+var BaseAttributes_1 = require("./BaseAttributes");
+Object.defineProperty(exports, "BaseAttributes", { enumerable: true, get: function () { return __importDefault(BaseAttributes_1).default; } });
+var BaseCoreDetails_1 = require("./BaseCoreDetails");
+Object.defineProperty(exports, "BaseCoreDetails", { enumerable: true, get: function () { return __importDefault(BaseCoreDetails_1).default; } });
 var FeatureDetails_2 = require("./FeatureDetails");
 Object.defineProperty(exports, "FeatureDetails", { enumerable: true, get: function () { return __importDefault(FeatureDetails_2).default; } });

package/BaseFeatureWidget/BaseFeatureDetail/types.d.ts

@@ -0,0 +1,7 @@
+import type { BaseCardProps } from '../types';
+export interface BaseInputProps extends BaseCardProps {
+    omit?: string[];
+    model: any;
+    descriptions?: Record<string, React.ReactNode>;
+    formatter?: (val: unknown, key: string) => React.ReactNode;
+}

package/BaseFeatureWidget/BaseFeatureDetail/types.js

@@ -0,0 +1,2 @@
+"use strict";
+Object.defineProperty(exports, "__esModule", { value: true });

package/PluginLoader.d.ts

@@ -39,7 +39,8 @@ export interface PluginRecord {
 export interface LoadedPlugin {
     default: PluginConstructor;
 }
-export declare function pluginDescriptionString(pluginDefinition: PluginDefinition): string;
+export declare function pluginDescriptionString(d: PluginDefinition): string;
+export declare function pluginUrl(d: PluginDefinition): any;
 export default class PluginLoader {
     definitions: PluginDefinition[];
     fetchESM?: (url: string) => Promise<LoadedPlugin>;

package/PluginLoader.js

@@ -7,6 +7,7 @@ exports.isUMDPluginDefinition = isUMDPluginDefinition;
 exports.isESMPluginDefinition = isESMPluginDefinition;
 exports.isCJSPluginDefinition = isCJSPluginDefinition;
 exports.pluginDescriptionString = pluginDescriptionString;
+exports.pluginUrl = pluginUrl;
 const load_script_1 = __importDefault(require("load-script"));
 const Plugin_1 = __importDefault(require("./Plugin"));
 const ReExports_1 = __importDefault(require("./ReExports"));
@@ -46,18 +47,35 @@ async function loadScript(scriptUrl) {
 function isCJSPluginDefinition(def) {
     return def.cjsUrl !== undefined;
 }
-function pluginDescriptionString(pluginDefinition) {
-    if (isUMDPluginDefinition(pluginDefinition)) {
-        return `UMD plugin ${pluginDefinition.name}`;
+function pluginDescriptionString(d) {
+    if (isUMDPluginDefinition(d)) {
+        return `UMD plugin ${d.name}`;
     }
-    if (isESMPluginDefinition(pluginDefinition)) {
-        return `ESM plugin ${pluginDefinition.esmUrl ||
-            pluginDefinition.esmLoc.uri}`;
+    else if (isESMPluginDefinition(d)) {
+        return `ESM plugin ${d.esmUrl ||
+            d.esmLoc.uri}`;
     }
-    if (isCJSPluginDefinition(pluginDefinition)) {
-        return `CJS plugin ${pluginDefinition.cjsUrl}`;
+    else if (isCJSPluginDefinition(d)) {
+        return `CJS plugin ${d.cjsUrl}`;
+    }
+    else {
+        return 'unknown plugin';
+    }
+}
+function pluginUrl(d) {
+    var _a, _b, _c;
+    if (isUMDPluginDefinition(d)) {
+        return (_b = (_a = d.url) !== null && _a !== void 0 ? _a : d.esmLoc.uri) !== null && _b !== void 0 ? _b : d.umdUrl;
+    }
+    else if (isESMPluginDefinition(d)) {
+        return (_c = d.esmUrl) !== null && _c !== void 0 ? _c : d.esmUri;
+    }
+    else if (isCJSPluginDefinition(d)) {
+        return d.cjsUrl || d.cjsLoc.uri;
+    }
+    else {
+        return 'unknown url';
     }
-    return 'unknown plugin';
 }
 function isInWebWorker() {
     return Boolean('WorkerGlobalScope' in globalThis);

package/PluginManager.d.ts

@@ -200,6 +200,8 @@ export default class PluginManager {
             Attributes: import("react").ForwardRefExoticComponent<Omit<any, "ref"> & import("react").RefAttributes<unknown>>;
             FeatureDetails: import("react").ForwardRefExoticComponent<Omit<any, "ref"> & import("react").RefAttributes<unknown>>;
             BaseCard: import("react").ForwardRefExoticComponent<Omit<any, "ref"> & import("react").RefAttributes<unknown>>;
+            BaseCoreDetails: import("react").LazyExoticComponent<typeof import("./BaseFeatureWidget/BaseFeatureDetail").BaseCoreDetails>;
+            BaseAttributes: import("react").LazyExoticComponent<typeof import("./BaseFeatureWidget/BaseFeatureDetail").BaseAttributes>;
         };
         '@jbrowse/core/data_adapters/BaseAdapter': typeof import("./data_adapters/BaseAdapter");
         mobx: typeof import("mobx");
@@ -238,6 +240,7 @@ export default class PluginManager {
         '@mui/material': {
             alpha: typeof import("@mui/system").alpha;
             useTheme: typeof import("@mui/material").useTheme;
+            createTheme: typeof import("@mui/material").createTheme;
         };
         '@mui/material/styles': {
             MUIStyles: typeof import("@mui/material/styles");

package/ReExports/list.js

@@ -19,6 +19,7 @@ exports.default = [
     '@material-ui/core/Accordion',
     '@material-ui/core/AccordionActions',
     '@material-ui/core/AccordionDetails',
+    '@material-ui/core/AccordionSummary',
     '@material-ui/core/Alert',
     '@material-ui/core/AlertTitle',
     '@material-ui/core/Autocomplete',
@@ -129,6 +130,7 @@ exports.default = [
     '@mui/material/Accordion',
     '@mui/material/AccordionActions',
     '@mui/material/AccordionDetails',
+    '@mui/material/AccordionSummary',
     '@mui/material/Alert',
     '@mui/material/AlertTitle',
     '@mui/material/Autocomplete',

package/ReExports/modules.d.ts

@@ -1,6 +1,6 @@
 import type { LazyExoticComponent } from 'react';
 import * as React from 'react';
-import { useTheme } from '@mui/material';
+import { alpha, createTheme, useTheme } from '@mui/material';
 import * as MUIStyles from '@mui/material/styles';
 import * as MUIUtils from '@mui/material/utils';
 import { useGridApiContext } from '@mui/x-data-grid';
@@ -120,6 +120,8 @@ declare const libs: {
         Attributes: React.ForwardRefExoticComponent<Omit<any, "ref"> & React.RefAttributes<unknown>>;
         FeatureDetails: React.ForwardRefExoticComponent<Omit<any, "ref"> & React.RefAttributes<unknown>>;
         BaseCard: React.ForwardRefExoticComponent<Omit<any, "ref"> & React.RefAttributes<unknown>>;
+        BaseCoreDetails: LazyExoticComponent<typeof import("../BaseFeatureWidget/BaseFeatureDetail/BaseCoreDetails").default>;
+        BaseAttributes: LazyExoticComponent<typeof import("../BaseFeatureWidget/BaseFeatureDetail/BaseAttributes").default>;
     };
     '@jbrowse/core/data_adapters/BaseAdapter': typeof BaseAdapterExports;
     mobx: typeof mobx;
@@ -152,12 +154,13 @@ declare const libs: {
     };
     '@material-ui/core': {
         useTheme: typeof useTheme;
-        alpha: typeof MUIStyles.alpha;
+        alpha: typeof alpha;
         makeStyles: (args: any) => () => Record<string, string>;
     };
     '@mui/material': {
-        alpha: typeof MUIStyles.alpha;
+        alpha: typeof alpha;
         useTheme: typeof useTheme;
+        createTheme: typeof createTheme;
     };
     '@mui/material/styles': {
         MUIStyles: typeof MUIStyles;

package/ReExports/modules.js

@@ -80,6 +80,7 @@ const Entries = {
     Accordion: (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('@mui/material/Accordion')))),
     AccordionActions: (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('@mui/material/AccordionActions')))),
     AccordionDetails: (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('@mui/material/AccordionDetails')))),
+    AccordionSummary: (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('@mui/material/AccordionSummary')))),
     Alert: (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('@mui/material/Alert')))),
     AlertTitle: (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('@mui/material/AlertTitle')))),
     Autocomplete: (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('@mui/material/Autocomplete')))),
@@ -204,6 +205,8 @@ const MuiPrefixMUI = Object.fromEntries(Object.entries(LazyMUICore).map(([key, v
 const Attributes = (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('../BaseFeatureWidget/BaseFeatureDetail/Attributes'))));
 const FeatureDetails = (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('../BaseFeatureWidget/BaseFeatureDetail/FeatureDetails'))));
 const BaseCard = (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('../BaseFeatureWidget/BaseFeatureDetail/BaseCard'))));
+const BaseAttributes = (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('../BaseFeatureWidget/BaseFeatureDetail/BaseAttributes'))));
+const BaseCoreDetails = (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('../BaseFeatureWidget/BaseFeatureDetail/BaseCoreDetails'))));
 const DataGridEntries = {
     DataGrid: (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('@mui/x-data-grid'))).then(module => ({ default: module.DataGrid }))),
     GridActionsCellItem: (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('@mui/x-data-grid'))).then(module => ({
@@ -386,7 +389,7 @@ const libs = {
     '@material-ui/core': {
         ...LazyMUICore,
         useTheme: material_1.useTheme,
-        alpha: MUIStyles.alpha,
+        alpha: material_1.alpha,
         makeStyles: (args) => {
             const useStyles = (0, mui_1.makeStyles)()(args);
             return () => useStyles().classes;
@@ -394,8 +397,9 @@ const libs = {
     },
     '@mui/material': {
         ...LazyMUICore,
-        alpha: MUIStyles.alpha,
-        useTheme: MUIStyles.useTheme,
+        alpha: material_1.alpha,
+        useTheme: material_1.useTheme,
+        createTheme: material_1.createTheme,
     },
     '@mui/material/styles': {
         MUIStyles,
@@ -451,6 +455,8 @@ const libs = {
         Attributes: LazyAttributes,
         FeatureDetails: LazyFeatureDetails,
         BaseCard: LazyBaseCard,
+        BaseCoreDetails,
+        BaseAttributes,
     },
     '@jbrowse/core/data_adapters/BaseAdapter': BaseAdapterExports,
 };

package/assemblyManager/assembly.js

@@ -111,7 +111,7 @@ function assemblyFactory(assemblyConfigType, pluginManager) {
             return self.getConf('aliases') || [];
         },
         get displayName() {
-            return self.getConf('displayName');
+            return self.getConf('displayName') || self.getConf('name') || '';
         },
         hasName(name) {
             return this.allAliases.includes(name);

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/core",
-  "version": "3.0.1",
+  "version": "3.0.2",
   "description": "JBrowse 2 core libraries used by plugins",
   "keywords": [
     "jbrowse",
@@ -69,5 +69,5 @@
     "access": "public",
     "directory": "dist"
   },
-  "gitHead": "aa2f1d1a89d2361c7fd1a93fe29506fa4554f5cc"
+  "gitHead": "c01a35edcb2612e94661af8793f09c95c0b13c75"
 }

package/pluggableElementTypes/models/BaseTrackModel.d.ts

@@ -19,6 +19,7 @@ export declare function createBaseTrackModel(pm: PluginManager, trackType: strin
     readonly rpcSessionId: any;
     readonly name: any;
     readonly textSearchAdapter: any;
+    readonly adapterConfig: any;
     readonly adapterType: import("..").AdapterType;
     readonly viewMenuActions: MenuItem[];
     readonly canConfigure: boolean | ({

package/pluggableElementTypes/models/BaseTrackModel.js

@@ -39,6 +39,9 @@ function createBaseTrackModel(pm, trackType, baseTrackConfig) {
         get textSearchAdapter() {
             return (0, configuration_1.getConf)(self, 'textSearchAdapter');
         },
+        get adapterConfig() {
+            return (0, configuration_1.getConf)(self, 'adapter');
+        },
         get adapterType() {
             const adapterConfig = (0, configuration_1.getConf)(self, 'adapter');
             if (!adapterConfig) {