npm - @jbrowse/plugin-data-management - Versions diffs - 2.0.0 → 2.1.2 - Mend

@jbrowse/plugin-data-management 2.0.0 → 2.1.2

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.

Files changed (140) hide show

package/esm/HierarchicalTrackSelectorWidget/components/HierarchicalTrackSelector.js.map CHANGED Viewed

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1	- 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1	+ 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package/esm/HierarchicalTrackSelectorWidget/components/Node.d.ts ADDED Viewed

@@ -0,0 +1,29 @@
+/// <reference types="react" />
+import { HierarchicalTrackSelectorModel, TreeNode } from '../model';
+import { AnyConfigurationModel } from '@jbrowse/core/configuration';
+export interface InfoArgs {
+    target: HTMLElement;
+    id: string;
+    conf: AnyConfigurationModel;
+}
+export default function Node(props: {
+    data: {
+        nestingLevel: number;
+        checked: boolean;
+        conf: AnyConfigurationModel;
+        drawerPosition: unknown;
+        id: string;
+        isLeaf: boolean;
+        name: string;
+        onChange: Function;
+        toggleCollapse: (arg: string) => void;
+        tree: TreeNode;
+        selected: boolean;
+        model: HierarchicalTrackSelectorModel;
+    };
+    isOpen: boolean;
+    style?: {
+        height: number;
+    };
+    setOpen: (arg: boolean) => void;
+}): JSX.Element;

package/esm/HierarchicalTrackSelectorWidget/components/Node.js ADDED Viewed

@@ -0,0 +1,144 @@
+import React, { useState } from 'react';
+import { Checkbox, FormControlLabel, IconButton, Tooltip, Typography, } from '@mui/material';
+import { makeStyles } from 'tss-react/mui';
+// icons
+import ArrowDropDownIcon from '@mui/icons-material/ArrowDropDown';
+import ArrowRightIcon from '@mui/icons-material/ArrowRight';
+import MoreHorizIcon from '@mui/icons-material/MoreHoriz';
+import JBrowseMenu from '@jbrowse/core/ui/Menu';
+import { getSession } from '@jbrowse/core/util';
+import { readConfObject, } from '@jbrowse/core/configuration';
+import { getAllChildren } from './util';
+const useStyles = makeStyles()(theme => ({
+    compactCheckbox: {
+        padding: 0,
+    },
+    checkboxLabel: {
+        marginRight: 0,
+        '&:hover': {
+            backgroundColor: '#eee',
+        },
+    },
+    contrastColor: {
+        color: theme.palette.secondary.contrastText,
+    },
+    // this accordionBase element's small padding is used to give a margin to
+    // accordionColor it a "margin" because the virtualized elements can't really
+    // use margin in a conventional way (it doesn't affect layout)
+    accordionBase: {
+        display: 'flex',
+    },
+    accordionCard: {
+        padding: 3,
+        cursor: 'pointer',
+        display: 'flex',
+    },
+    nestingLevelMarker: {
+        position: 'absolute',
+        borderLeft: '1.5px solid #555',
+    },
+    // accordionColor set's display:flex so that the child accordionText use
+    // vertically centered text
+    accordionColor: {
+        background: theme.palette.tertiary.main,
+        color: theme.palette.tertiary.contrastText,
+        width: '100%',
+        display: 'flex',
+        paddingLeft: 5,
+    },
+    // margin:auto 0 to center text vertically
+    accordionText: {
+        margin: 'auto 0',
+    },
+}));
+function treeToMap(tree, map = new Map()) {
+    if (tree.id && tree.children.length) {
+        map.set(tree.id, tree);
+    }
+    for (let i = 0; i < tree.children.length; i++) {
+        const node = tree.children[i];
+        treeToMap(node, map);
+    }
+    return map;
+}
+function isUnsupported(name = '') {
+    return name.endsWith('(Unsupported)') || name.endsWith('(Unknown)');
+}
+// An individual node in the track selector. Note: manually sets cursor:
+// pointer improves usability for what can be clicked
+export default function Node(props) {
+    var _a, _b;
+    const { data, isOpen, style, setOpen } = props;
+    const { checked, conf, drawerPosition, id, isLeaf, model, name, nestingLevel, onChange, selected, toggleCollapse, tree, } = data;
+    const { classes } = useStyles();
+    const width = 10;
+    const [menuEl, setMenuEl] = useState(null);
+    const [info, setInfo] = useState();
+    const marginLeft = nestingLevel * width + (isLeaf ? width : 0);
+    const description = (conf && readConfObject(conf, ['description'])) || '';
+    return (React.createElement("div", { style: style, className: !isLeaf ? classes.accordionBase : undefined },
+        new Array(nestingLevel).fill(0).map((_, idx) => (React.createElement("div", { key: `mark-${idx}`, style: { left: idx * width + 4, height: style === null || style === void 0 ? void 0 : style.height }, className: classes.nestingLevelMarker }))),
+        React.createElement("div", { className: !isLeaf ? classes.accordionCard : undefined, onClick: () => {
+                if (!menuEl) {
+                    toggleCollapse(id);
+                    setOpen(!isOpen);
+                }
+            }, style: {
+                marginLeft,
+                whiteSpace: 'nowrap',
+                width: '100%',
+            } },
+            React.createElement("div", { className: !isLeaf ? classes.accordionColor : undefined },
+                !isLeaf ? (React.createElement("div", { className: classes.accordionText },
+                    React.createElement(Typography, null,
+                        isOpen ? React.createElement(ArrowDropDownIcon, null) : React.createElement(ArrowRightIcon, null),
+                        name,
+                        React.createElement(IconButton, { onClick: event => {
+                                setMenuEl(event.currentTarget);
+                                event.stopPropagation();
+                            }, className: classes.contrastColor },
+                            React.createElement(MoreHorizIcon, null))))) : (React.createElement(React.Fragment, null,
+                    React.createElement(Tooltip, { title: description + (selected ? ' (in selection)' : ''), placement: drawerPosition === 'left' ? 'right' : 'left' },
+                        React.createElement(FormControlLabel, { className: classes.checkboxLabel, control: React.createElement(Checkbox, { className: classes.compactCheckbox, checked: checked, onChange: () => onChange(id), disabled: isUnsupported(name), inputProps: {
+                                    // @ts-ignore
+                                    'data-testid': `htsTrackEntry-${id}`,
+                                } }), label: React.createElement("div", { style: {
+                                    background: selected ? '#cccc' : undefined,
+                                    padding: 1,
+                                } }, name) })),
+                    React.createElement(IconButton, { onClick: e => setInfo({ target: e.currentTarget, id, conf }), style: { padding: 0 }, color: "secondary", "data-testid": `htsTrackEntryMenu-${id}` },
+                        React.createElement(MoreHorizIcon, null)))),
+                menuEl ? (React.createElement(JBrowseMenu, { anchorEl: menuEl, menuItems: [
+                        {
+                            label: 'Add to selection',
+                            onClick: () => model.addToSelection(getAllChildren(treeToMap(tree).get(id))),
+                        },
+                        {
+                            label: 'Remove from selection',
+                            onClick: () => model.removeFromSelection(getAllChildren(treeToMap(tree).get(id))),
+                        },
+                    ], onMenuItemClick: (_event, callback) => {
+                        callback();
+                        setMenuEl(null);
+                    }, open: Boolean(menuEl), onClose: () => setMenuEl(null) })) : null,
+                info ? (React.createElement(JBrowseMenu, { anchorEl: info === null || info === void 0 ? void 0 : info.target, menuItems: [
+                        ...(((_b = (_a = getSession(model)).getTrackActionMenuItems) === null || _b === void 0 ? void 0 : _b.call(_a, info.conf)) ||
+                            []),
+                        {
+                            label: 'Add to selection',
+                            onClick: () => model.addToSelection([info.conf]),
+                        },
+                        ...(selected
+                            ? [
+                                {
+                                    label: 'Remove from selection',
+                                    onClick: () => model.removeFromSelection([info.conf]),
+                                },
+                            ]
+                            : []),
+                    ], onMenuItemClick: (_event, callback) => {
+                        callback();
+                        setInfo(undefined);
+                    }, open: Boolean(info), onClose: () => setInfo(undefined) })) : null))));
+}
+//# sourceMappingURL=Node.js.map

package/esm/HierarchicalTrackSelectorWidget/components/Node.js.map ADDED Viewed

@@ -0,0 +1 @@

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package/esm/HierarchicalTrackSelectorWidget/components/util.d.ts ADDED Viewed

@@ -0,0 +1,3 @@
+import { AnyConfigurationModel } from '@jbrowse/core/configuration';
+import { TreeNode } from '../model';
+export declare function getAllChildren(subtree?: TreeNode): AnyConfigurationModel[];

package/esm/HierarchicalTrackSelectorWidget/components/util.js ADDED Viewed

@@ -0,0 +1,5 @@
+export function getAllChildren(subtree) {
+    // @ts-ignore
+    return ((subtree === null || subtree === void 0 ? void 0 : subtree.children.map(t => t.children.length ? getAllChildren(t) : t.conf)) || []).flat(Infinity);
+}
+//# sourceMappingURL=util.js.map

package/esm/HierarchicalTrackSelectorWidget/components/util.js.map ADDED Viewed

@@ -0,0 +1 @@

+ {"version":3,"file":"util.js","sourceRoot":"","sources":["../../../src/HierarchicalTrackSelectorWidget/components/util.ts"],"names":[],"mappings":"AAGA,MAAM,UAAU,cAAc,CAAC,OAAkB;IAC/C,aAAa;IACb,OAAO,CACL,CAAA,OAAO,aAAP,OAAO,uBAAP,OAAO,CAAE,QAAQ,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,CACxB,CAAC,CAAC,QAAQ,CAAC,MAAM,CAAC,CAAC,CAAC,cAAc,CAAC,CAAC,CAAC,CAAC,CAAC,CAAE,CAAC,CAAC,IAA8B,CAC1E,KAAI,EAAE,CACR,CAAC,IAAI,CAAC,QAAQ,CAAC,CAAA;AAClB,CAAC"}

package/esm/HierarchicalTrackSelectorWidget/configSchema.d.ts ADDED Viewed

	@@ -0,0 +1,2 @@
1	+ declare const configSchema: import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
2	+ export default configSchema;

package/esm/HierarchicalTrackSelectorWidget/configSchema.js ADDED Viewed

@@ -0,0 +1,4 @@
+import { ConfigurationSchema } from '@jbrowse/core/configuration';
+const configSchema = ConfigurationSchema('HierarchicalTrackSelectorWidget', {});
+export default configSchema;
+//# sourceMappingURL=configSchema.js.map

package/esm/HierarchicalTrackSelectorWidget/configSchema.js.map ADDED Viewed

	@@ -0,0 +1 @@
1	+ {"version":3,"file":"configSchema.js","sourceRoot":"","sources":["../../src/HierarchicalTrackSelectorWidget/configSchema.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,mBAAmB,EAAE,MAAM,6BAA6B,CAAA;AACjE,MAAM,YAAY,GAAG,mBAAmB,CAAC,iCAAiC,EAAE,EAAE,CAAC,CAAA;AAC/E,eAAe,YAAY,CAAA"}

package/esm/HierarchicalTrackSelectorWidget/index.d.ts CHANGED Viewed

@@ -1,2 +1,4 @@
-export { default as stateModelFactory } from './model';
-export declare const configSchema: import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
+import stateModelFactory, { HierarchicalTrackSelectorModel } from './model';
+import configSchema from './configSchema';
+export { stateModelFactory, configSchema };
+export type { HierarchicalTrackSelectorModel };

package/esm/HierarchicalTrackSelectorWidget/index.js CHANGED Viewed

@@ -1,4 +1,4 @@
-import { ConfigurationSchema } from '@jbrowse/core/configuration';
-export { default as stateModelFactory } from './model';
-export const configSchema = ConfigurationSchema('HierarchicalTrackSelectorWidget', {});
+import stateModelFactory from './model';
+import configSchema from './configSchema';
+export { stateModelFactory, configSchema };
 //# sourceMappingURL=index.js.map

package/esm/HierarchicalTrackSelectorWidget/index.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- {"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/HierarchicalTrackSelectorWidget/index.ts"],"names":[],"mappings":"AAAA,OAAO,~~EAAE~~,~~mBAAmB,EAAE,~~MAAM,~~6BAA6B~~,CAAA;~~AAEjE~~,OAAO,~~EAAE~~,~~OAAO,IAAI,iBAAiB,EAAE,~~MAAM,~~SAAS~~,CAAA;~~AACtD~~,~~MAAM~~,~~CAAC~~,~~MAAM~~,YAAY,~~GAAG,mBAAmB,CAC7C,iCAAiC,EACjC,~~EAAE,~~CACH,~~CAAA"}
1	+ {"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/HierarchicalTrackSelectorWidget/index.ts"],"names":[],"mappings":"AAAA,OAAO,iBAAqD,MAAM,SAAS,CAAA;AAC3E,OAAO,YAAY,MAAM,gBAAgB,CAAA;AAEzC,OAAO,EAAE,iBAAiB,EAAE,YAAY,EAAE,CAAA"}

package/esm/HierarchicalTrackSelectorWidget/model.d.ts CHANGED Viewed

@@ -1,7 +1,6 @@
 import { Instance } from 'mobx-state-tree';
 import { AnyConfigurationModel } from '@jbrowse/core/configuration';
 import PluginManager from '@jbrowse/core/PluginManager';
-import { AbstractView } from 'react';
 export declare type TreeNode = {
     name: string;
     id: string;
@@ -20,7 +19,16 @@ export default function stateTreeFactory(pluginManager: PluginManager): import("
     filterText: import("mobx-state-tree").IType<string | undefined, string, string>;
     view: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>;
 }, {
-    setView(view: AbstractView): void;
+    selection: ({
+        [x: string]: any;
+    } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
+        setSubschema(slotName: string, data: unknown): any;
+    } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>)[];
+} & {
+    addToSelection(elt: AnyConfigurationModel[]): void;
+    removeFromSelection(elt: AnyConfigurationModel[]): void;
+    clearSelection(): void;
+    setView(view: unknown): void;
     toggleCategory(pathName: string): void;
     clearFilterText(): void;
     setFilterText(newText: string): void;

package/esm/HierarchicalTrackSelectorWidget/model.js CHANGED Viewed

@@ -1,4 +1,4 @@
-import { types, getParent } from 'mobx-state-tree';
+import { types, getParent, getEnv } from 'mobx-state-tree';
 import { getConf, readConfObject, } from '@jbrowse/core/configuration';
 import { getSession } from '@jbrowse/core/util';
 import { ElementId } from '@jbrowse/core/util/types/mst';
@@ -9,7 +9,7 @@ function passesFilter(filter, config) {
     const categories = readConfObject(config, 'category');
     const filterLower = filter.toLowerCase();
     return (getTrackName(config).toLowerCase().includes(filterLower) ||
-        (categories === null || categories === void 0 ? void 0 : categories.filter(c => c.toLowerCase().includes(filterLower)).length));
+        !!(categories === null || categories === void 0 ? void 0 : categories.filter(c => c.toLowerCase().includes(filterLower)).length));
 }
 function getTrackName(config) {
     if (!config.trackId) {
@@ -18,6 +18,26 @@ function getTrackName(config) {
     return (readConfObject(config, 'name') ||
         `Reference sequence (${readConfObject(getParent(config), 'name')})`);
 }
+function filterTracks(tracks, self, assemblyName) {
+    const { assemblyManager } = getSession(self);
+    const { pluginManager } = getEnv(self);
+    const assembly = assemblyManager.get(assemblyName);
+    if (!assembly) {
+        return [];
+    }
+    return tracks
+        .filter(c => {
+        const trackConfAssemblies = readConfObject(c, 'assemblyNames');
+        const { allAliases } = assembly;
+        return hasAnyOverlap(allAliases, trackConfAssemblies);
+    })
+        .filter(c => {
+        const { displayTypes } = pluginManager.getViewType(self.view.type);
+        const compatDisplays = displayTypes.map((d) => d.name);
+        const trackDisplays = c.displays.map((d) => d.type);
+        return hasAnyOverlap(compatDisplays, trackDisplays);
+    });
+}
 export function generateHierarchy(model, trackConfigurations, collapsed) {
     const hierarchy = { children: [] };
     const { filterText, view } = model;
@@ -73,7 +93,19 @@ export default function stateTreeFactory(pluginManager) {
         filterText: '',
         view: types.safeReference(pluginManager.pluggableMstType('view', 'stateModel')),
     })
+        .volatile(() => ({
+        selection: [],
+    }))
         .actions(self => ({
+        addToSelection(elt) {
+            self.selection = [...self.selection, ...elt];
+        },
+        removeFromSelection(elt) {
+            self.selection = self.selection.filter(f => !elt.includes(f));
+        },
+        clearSelection() {
+            self.selection = [];
+        },
         setView(view) {
             self.view = view;
         },
@@ -117,18 +149,7 @@ export default function stateTreeFactory(pluginManager) {
             // filter out tracks that don't match the current assembly (check all
             // assembly aliases) and display types
             return (refseq ? [refseq] : []).concat([
-                ...tracks
-                    .filter(c => {
-                    const trackConfAssemblies = readConfObject(c, 'assemblyNames');
-                    const { allAliases } = assembly;
-                    return hasAnyOverlap(allAliases, trackConfAssemblies);
-                })
-                    .filter(c => {
-                    const { displayTypes } = pluginManager.getViewType(self.view.type);
-                    const compatibleDisplays = displayTypes.map(d => d.name);
-                    const trackDisplays = c.displays.map((d) => d.type);
-                    return hasAnyOverlap(compatibleDisplays, trackDisplays);
-                }),
+                ...filterTracks(tracks, self, assemblyName),
             ]);
         },
         get assemblyNames() {
@@ -139,25 +160,8 @@ export default function stateTreeFactory(pluginManager) {
             if (!self.view) {
                 return [];
             }
-            const trackConfigurations = connection.tracks;
-            const { assemblyManager } = getSession(self);
-            const assembly = assemblyManager.get(assemblyName);
-            if (!(assembly && assembly.initialized)) {
-                return [];
-            }
             // filter out tracks that don't match the current display types
-            return trackConfigurations
-                .filter(c => {
-                const trackConfAssemblies = readConfObject(c, 'assemblyNames');
-                const { allAliases } = assembly;
-                return hasAnyOverlap(allAliases, trackConfAssemblies);
-            })
-                .filter(c => {
-                const { displayTypes } = pluginManager.getViewType(self.view.type);
-                const compatibleDisplays = displayTypes.map(d => d.name);
-                const trackDisplays = c.displays.map((d) => d.type);
-                return hasAnyOverlap(compatibleDisplays, trackDisplays);
-            });
+            return filterTracks(connection.tracks, self, assemblyName);
         },
     }))
         .views(self => ({

package/esm/HierarchicalTrackSelectorWidget/model.js.map CHANGED Viewed

	@@ -1 +1 @@
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1	+ {"version":3,"file":"model.js","sourceRoot":"","sources":["../../src/HierarchicalTrackSelectorWidget/model.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,KAAK,EAAE,SAAS,EAAE,MAAM,EAAY,MAAM,iBAAiB,CAAA;AACpE,OAAO,EACL,OAAO,EACP,cAAc,GAEf,MAAM,6BAA6B,CAAA;AACpC,OAAO,EAAE,UAAU,EAAE,MAAM,oBAAoB,CAAA;AAC/C,OAAO,EAAE,SAAS,EAAE,MAAM,8BAA8B,CAAA;AAGxD,SAAS,aAAa,CAAI,KAAU,EAAE,EAAE,KAAU,EAAE;IAClD,OAAO,CAAC,CAAC,EAAE,CAAC,IAAI,CAAC,KAAK,CAAC,EAAE,CAAC,EAAE,CAAC,QAAQ,CAAC,KAAK,CAAC,CAAC,CAAA;AAC/C,CAAC;AAED,SAAS,YAAY,CAAC,MAAc,EAAE,MAA6B;IACjE,MAAM,UAAU,GAAG,cAAc,CAAC,MAAM,EAAE,UAAU,CAAyB,CAAA;IAC7E,MAAM,WAAW,GAAG,MAAM,CAAC,WAAW,EAAE,CAAA;IACxC,OAAO,CACL,YAAY,CAAC,MAAM,CAAC,CAAC,WAAW,EAAE,CAAC,QAAQ,CAAC,WAAW,CAAC;QACxD,CAAC,CAAC,CAAA,UAAU,aAAV,UAAU,uBAAV,UAAU,CAAE,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,WAAW,EAAE,CAAC,QAAQ,CAAC,WAAW,CAAC,EAAE,MAAM,CAAA,CACxE,CAAA;AACH,CAAC;AAED,SAAS,YAAY,CAAC,MAA6B;IACjD,IAAI,CAAC,MAAM,CAAC,OAAO,EAAE;QACnB,MAAM,IAAI,KAAK,CAAC,aAAa,CAAC,CAAA;KAC/B;IACD,OAAO,CACL,cAAc,CAAC,MAAM,EAAE,MAAM,CAAC;QAC9B,uBAAuB,cAAc,CAAC,SAAS,CAAC,MAAM,CAAC,EAAE,MAAM,CAAC,GAAG,CACpE,CAAA;AACH,CAAC;AAWD,SAAS,YAAY,CACnB,MAA+B,EAC/B,IAAgC,EAChC,YAAoB;IAEpB,MAAM,EAAE,eAAe,EAAE,GAAG,UAAU,CAAC,IAAI,CAAC,CAAA;IAC5C,MAAM,EAAE,aAAa,EAAE,GAAG,MAAM,CAAC,IAAI,CAAC,CAAA;IACtC,MAAM,QAAQ,GAAG,eAAe,CAAC,GAAG,CAAC,YAAY,CAAC,CAAA;IAElD,IAAI,CAAC,QAAQ,EAAE;QACb,OAAO,EAAE,CAAA;KACV;IACD,OAAO,MAAM;SACV,MAAM,CAAC,CAAC,CAAC,EAAE;QACV,MAAM,mBAAmB,GAAG,cAAc,CAAC,CAAC,EAAE,eAAe,CAAC,CAAA;QAC9D,MAAM,EAAE,UAAU,EAAE,GAAG,QAAQ,CAAA;QAC/B,OAAO,aAAa,CAAC,UAAU,EAAE,mBAAmB,CAAC,CAAA;IACvD,CAAC,CAAC;SACD,MAAM,CAAC,CAAC,CAAC,EAAE;QACV,MAAM,EAAE,YAAY,EAAE,GAAG,aAAa,CAAC,WAAW,CAAC,IAAI,CAAC,IAAI,CAAC,IAAI,CAAC,CAAA;QAClE,MAAM,cAAc,GAAG,YAAY,CAAC,GAAG,CAAC,CAAC,CAAmB,EAAE,EAAE,CAAC,CAAC,CAAC,IAAI,CAAC,CAAA;QACxE,MAAM,aAAa,GAAG,CAAC,CAAC,QAAQ,CAAC,GAAG,CAAC,CAAC,CAAmB,EAAE,EAAE,CAAC,CAAC,CAAC,IAAI,CAAC,CAAA;QACrE,OAAO,aAAa,CAAC,cAAc,EAAE,aAAa,CAAC,CAAA;IACrD,CAAC,CAAC,CAAA;AACN,CAAC;AAED,MAAM,UAAU,iBAAiB,CAC/B,KAAqC,EACrC,mBAA4C,EAC5C,SAAwD;IAExD,MAAM,SAAS,GAAG,EAAE,QAAQ,EAAE,EAAgB,EAAc,CAAA;IAC5D,MAAM,EAAE,UAAU,EAAE,IAAI,EAAE,GAAG,KAAK,CAAA;IAElC,mBAAmB;SAChB,MAAM,CAAC,IAAI,CAAC,EAAE,CAAC,YAAY,CAAC,UAAU,EAAE,IAAI,CAAC,CAAC;SAC9C,OAAO,CAAC,IAAI,CAAC,EAAE;QACd,iEAAiE;QACjE,MAAM,UAAU,GAAG,CAAC,GAAG,CAAC,cAAc,CAAC,IAAI,EAAE,UAAU,CAAC,IAAI,EAAE,CAAC,CAAC,CAAA;QAEhE,uEAAuE;QACvE,kEAAkE;QAClE,0BAA0B;QAC1B,IAAI,IAAI,CAAC,OAAO,CAAC,QAAQ,CAAC,cAAc,CAAC,EAAE;YACzC,UAAU,CAAC,OAAO,CAAC,iBAAiB,CAAC,CAAA;SACtC;QAED,IAAI,SAAS,GAAG,SAAS,CAAA;QAEzB,wDAAwD;QACxD,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,UAAU,CAAC,MAAM,EAAE,CAAC,EAAE,EAAE;YAC1C,MAAM,QAAQ,GAAG,UAAU,CAAC,CAAC,CAAC,CAAA;YAC9B,MAAM,GAAG,GAAG,SAAS,CAAC,QAAQ,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,IAAI,KAAK,QAAQ,CAAC,CAAA;YAC7D,MAAM,EAAE,GAAG,UAAU,CAAC,KAAK,CAAC,CAAC,EAAE,CAAC,GAAG,CAAC,CAAC,CAAC,IAAI,CAAC,GAAG,CAAC,CAAA;YAC/C,IAAI,CAAC,GAAG,EAAE;gBACR,MAAM,CAAC,GAAG;oBACR,QAAQ,EAAE,EAAE;oBACZ,IAAI,EAAE,QAAQ;oBACd,EAAE;oBACF,eAAe,EAAE,CAAC,SAAS,CAAC,GAAG,CAAC,EAAE,CAAC;iBACpC,CAAA;gBACD,SAAS,CAAC,QAAQ,CAAC,IAAI,CAAC,CAAC,CAAC,CAAA;gBAC1B,SAAS,GAAG,CAAC,CAAA;aACd;iBAAM;gBACL,SAAS,GAAG,GAAG,CAAA;aAChB;SACF;QACD,MAAM,MAAM,GAAG,IAAI,CAAC,MAAoD,CAAA;QAExE,uEAAuE;QACvE,SAAS,CAAC,QAAQ,CAAC,MAAM,CACvB,SAAS,CAAC,QAAQ,CAAC,SAAS,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,CAAC,QAAQ,CAAC,MAAM,CAAC,EACxD,CAAC,EACD;YACE,EAAE,EAAE,IAAI,CAAC,OAAO;YAChB,IAAI,EAAE,YAAY,CAAC,IAAI,CAAC;YACxB,IAAI;YACJ,OAAO,EAAE,CAAC,CAAC,MAAM,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,aAAa,KAAK,IAAI,CAAC;YACrD,QAAQ,EAAE,EAAE;SACb,CACF,CAAA;IACH,CAAC,CAAC,CAAA;IAEJ,OAAO,SAAS,CAAC,QAAQ,CAAA;AAC3B,CAAC;AAED,MAAM,CAAC,OAAO,UAAU,gBAAgB,CAAC,aAA4B;IACnE,OAAO,KAAK;SACT,KAAK,CAAC,iCAAiC,EAAE;QACxC,EAAE,EAAE,SAAS;QACb,IAAI,EAAE,KAAK,CAAC,OAAO,CAAC,iCAAiC,CAAC;QACtD,SAAS,EAAE,KAAK,CAAC,GAAG,CAAC,KAAK,CAAC,OAAO,CAAC;QACnC,UAAU,EAAE,EAAE;QACd,IAAI,EAAE,KAAK,CAAC,aAAa,CACvB,aAAa,CAAC,gBAAgB,CAAC,MAAM,EAAE,YAAY,CAAC,CACrD;KACF,CAAC;SACD,QAAQ,CAAC,GAAG,EAAE,CAAC,CAAC;QACf,SAAS,EAAE,EAA6B;KACzC,CAAC,CAAC;SACF,OAAO,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QAChB,cAAc,CAAC,GAA4B;YACzC,IAAI,CAAC,SAAS,GAAG,CAAC,GAAG,IAAI,CAAC,SAAS,EAAE,GAAG,GAAG,CAAC,CAAA;QAC9C,CAAC;QACD,mBAAmB,CAAC,GAA4B;YAC9C,IAAI,CAAC,SAAS,GAAG,IAAI,CAAC,SAAS,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,GAAG,CAAC,QAAQ,CAAC,CAAC,CAAC,CAAC,CAAA;QAC/D,CAAC;QACD,cAAc;YACZ,IAAI,CAAC,SAAS,GAAG,EAAE,CAAA;QACrB,CAAC;QACD,OAAO,CAAC,IAAa;YACnB,IAAI,CAAC,IAAI,GAAG,IAAI,CAAA;QAClB,CAAC;QACD,cAAc,CAAC,QAAgB;YAC7B,IAAI,CAAC,SAAS,CAAC,GAAG,CAAC,QAAQ,EAAE,CAAC,IAAI,CAAC,SAAS,CAAC,GAAG,CAAC,QAAQ,CAAC,CAAC,CAAA;QAC7D,CAAC;QACD,eAAe;YACb,IAAI,CAAC,UAAU,GAAG,EAAE,CAAA;QACtB,CAAC;QACD,aAAa,CAAC,OAAe;YAC3B,IAAI,CAAC,UAAU,GAAG,OAAO,CAAA;QAC3B,CAAC;KACF,CAAC,CAAC;SACF,KAAK,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;QACd,kBAAkB,CAAC,YAAoB;YACrC,MAAM,EAAE,eAAe,EAAE,GAAG,UAAU,CAAC,IAAI,CAAC,CAAA;YAC5C,MAAM,QAAQ,GAAG,eAAe,CAAC,GAAG,CAAC,YAAY,CAAC,CAAA;YAClD,MAAM,SAAS,GAAG,QAAQ,aAAR,QAAQ,uBAAR,QAAQ,CAAE,aAAa,CAAC,QAAQ,CAAA;YAClD,MAAM,QAAQ,GAAG,aAAa,CAAC,WAAW,CAA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package/esm/PluginStoreWidget/components/PluginStoreWidget.js CHANGED Viewed

@@ -22,8 +22,7 @@ const useStyles = makeStyles()(theme => ({
     adminBadge: {
         margin: '0.5em',
         borderRadius: 3,
-        // this is the quaternary color in JB2 palette
-        backgroundColor: '#FFB11D',
+        backgroundColor: theme.palette.quaternary.main,
         padding: '1em',
         display: 'flex',
         alignContent: 'center',

package/esm/PluginStoreWidget/components/PluginStoreWidget.js.map CHANGED Viewed

	@@ -1 +1 @@
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package/esm/index.d.ts CHANGED Viewed

@@ -1,6 +1,8 @@
 /// <reference types="react" />
 import Plugin from '@jbrowse/core/Plugin';
 import PluginManager from '@jbrowse/core/PluginManager';
+import { AddTrackModel } from './AddTrackWidget/model';
+import { HierarchicalTrackSelectorModel } from './HierarchicalTrackSelectorWidget';
 declare const SetDefaultSession: import("react").LazyExoticComponent<({ rootModel, onClose }: {
     rootModel?: unknown;
     onClose: () => void;
@@ -22,6 +24,7 @@ export default class extends Plugin {
         }) => JSX.Element | null>;
     };
     install(pluginManager: PluginManager): void;
-    configure(pluginManager: PluginManager): void;
+    configure(_pluginManager: PluginManager): void;
 }
 export { AssemblyManager, SetDefaultSession };
+export type { HierarchicalTrackSelectorModel, AddTrackModel };

package/esm/index.js CHANGED Viewed

@@ -64,7 +64,7 @@ export default class extends Plugin {
             });
         });
     }
-    configure(pluginManager) { }
+    configure(_pluginManager) { }
 }
 export { AssemblyManager, SetDefaultSession };
 //# sourceMappingURL=index.js.map

package/esm/index.js.map CHANGED Viewed

	@@ -1 +1 @@
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package/package.json CHANGED Viewed

@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/plugin-data-management",
-  "version": "2.0.0",
+  "version": "2.1.2",
   "description": "JBrowse 2 linear genome view",
   "keywords": [
     "jbrowse",
@@ -37,7 +37,6 @@
     "clean": "rimraf dist esm *.tsbuildinfo"
   },
   "dependencies": {
-    "@babel/runtime": "^7.17.9",
     "@gmod/ucsc-hub": "^0.1.3",
     "@mui/icons-material": "^5.0.1",
     "clsx": "^1.1.0",
@@ -46,8 +45,8 @@
     "react-window": "^1.8.6"
   },
   "peerDependencies": {
-    "@jbrowse/core": "^1.0.0",
-    "@jbrowse/plugin-config": "^1.0.0",
+    "@jbrowse/core": "^2.0.0",
+    "@jbrowse/plugin-config": "^2.0.0",
     "@mui/material": "^5.0.0",
     "mobx": "^6.0.0",
     "mobx-react": "^7.0.0",
@@ -62,5 +61,5 @@
   "distModule": "esm/index.js",
   "srcModule": "src/index.ts",
   "module": "esm/index.js",
-  "gitHead": "ecc7f5d47351a5ea04bc00f3a6eb6dfb607342e6"
+  "gitHead": "449b17325c9a4a97181f7ddddf48e80219f03b8d"
 }