@jbrowse/app-core 3.7.0 → 4.0.1

package/esm/AppFocus/index.d.ts

@@ -1,5 +1,5 @@
-export declare function AppFocusMixin(): import("mobx-state-tree").IModelType<{
-    focusedViewId: import("mobx-state-tree").IMaybe<import("mobx-state-tree").ISimpleType<string>>;
+export declare function AppFocusMixin(): import("@jbrowse/mobx-state-tree").IModelType<{
+    focusedViewId: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
 }, {
     setFocusedViewId(viewId: string): void;
-}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
+}, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>;

package/esm/AppFocus/index.js

@@ -1,4 +1,4 @@
-import { types } from 'mobx-state-tree';
+import { types } from '@jbrowse/mobx-state-tree';
 export function AppFocusMixin() {
     return types
         .model({

package/esm/Assemblies/SessionAssembliesMixin.d.ts

@@ -1,8 +1,8 @@
 import type PluginManager from '@jbrowse/core/PluginManager';
 import type { BaseAssemblyConfigSchema } from '@jbrowse/core/assemblyManager';
 import type { AnyConfiguration } from '@jbrowse/core/configuration';
-export declare function SessionAssembliesMixin(pluginManager: PluginManager, assemblyConfigSchemasType: BaseAssemblyConfigSchema): import("mobx-state-tree").IModelType<{
-    sessionAssemblies: import("mobx-state-tree").IArrayType<import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+export declare function SessionAssembliesMixin(pluginManager: PluginManager, assemblyConfigSchemasType: BaseAssemblyConfigSchema): import("@jbrowse/mobx-state-tree").IModelType<{
+    sessionAssemblies: import("@jbrowse/mobx-state-tree").IArrayType<import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaType<{
         aliases: {
             type: string;
             defaultValue: never[];
@@ -14,30 +14,30 @@ export declare function SessionAssembliesMixin(pluginManager: PluginManager, ass
             defaultValue: never[];
             description: string;
         };
-        refNameAliases: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
-            adapter: import("mobx-state-tree").IAnyModelType;
-        }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
-        cytobands: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
-            adapter: import("mobx-state-tree").IAnyModelType;
-        }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+        refNameAliases: import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaType<{
+            adapter: import("@jbrowse/mobx-state-tree").IAnyModelType;
+        }, import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+        cytobands: import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaType<{
+            adapter: import("@jbrowse/mobx-state-tree").IAnyModelType;
+        }, import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
         displayName: {
             type: string;
             defaultValue: string;
             description: string;
         };
-    }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "name">>>;
+    }, import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "name">>>;
 }, {
     addSessionAssembly(conf: AnyConfiguration): ({
         [x: string]: any;
-    } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
+    } & import("@jbrowse/mobx-state-tree/dist/internal").NonEmptyObject & {
         setSubschema(slotName: string, data: Record<string, unknown>): Record<string, unknown> | ({
             [x: string]: any;
-        } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
+        } & import("@jbrowse/mobx-state-tree/dist/internal").NonEmptyObject & {
             setSubschema(slotName: string, data: Record<string, unknown>): Record<string, unknown> | ({
                 [x: string]: any;
-            } & import("mobx-state-tree/dist/internal").NonEmptyObject & any & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>);
-        } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>);
-    } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+            } & import("@jbrowse/mobx-state-tree/dist/internal").NonEmptyObject & any & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>);
+        } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration").AnyConfigurationSchemaType>);
+    } & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaType<{
         aliases: {
             type: string;
             defaultValue: never[];
@@ -49,19 +49,44 @@ export declare function SessionAssembliesMixin(pluginManager: PluginManager, ass
             defaultValue: never[];
             description: string;
         };
-        refNameAliases: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
-            adapter: import("mobx-state-tree").IAnyModelType;
-        }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
-        cytobands: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
-            adapter: import("mobx-state-tree").IAnyModelType;
-        }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+        refNameAliases: import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaType<{
+            adapter: import("@jbrowse/mobx-state-tree").IAnyModelType;
+        }, import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+        cytobands: import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaType<{
+            adapter: import("@jbrowse/mobx-state-tree").IAnyModelType;
+        }, import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
         displayName: {
             type: string;
             defaultValue: string;
             description: string;
         };
-    }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "name">>>) | undefined;
+    }, import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "name">>>) | undefined;
     addAssembly(conf: AnyConfiguration): void;
     removeAssembly(name: string): void;
     removeSessionAssembly(assemblyName: string): void;
-}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
+}, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
+    sessionAssemblies: import("@jbrowse/mobx-state-tree").IArrayType<import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaType<{
+        aliases: {
+            type: string;
+            defaultValue: never[];
+            description: string;
+        };
+        sequence: import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
+        refNameColors: {
+            type: string;
+            defaultValue: never[];
+            description: string;
+        };
+        refNameAliases: import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaType<{
+            adapter: import("@jbrowse/mobx-state-tree").IAnyModelType;
+        }, import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+        cytobands: import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaType<{
+            adapter: import("@jbrowse/mobx-state-tree").IAnyModelType;
+        }, import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+        displayName: {
+            type: string;
+            defaultValue: string;
+            description: string;
+        };
+    }, import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "name">>>;
+}>>;

package/esm/Assemblies/SessionAssembliesMixin.js

@@ -1,4 +1,4 @@
-import { types } from 'mobx-state-tree';
+import { types } from '@jbrowse/mobx-state-tree';
 export function SessionAssembliesMixin(pluginManager, assemblyConfigSchemasType) {
     return types
         .model({
@@ -39,5 +39,15 @@ export function SessionAssembliesMixin(pluginManager, assemblyConfigSchemasType)
                 }
             },
         };
+    })
+        .postProcessSnapshot(snap => {
+        if (!snap) {
+            return snap;
+        }
+        const { sessionAssemblies, ...rest } = snap;
+        return {
+            ...rest,
+            ...(sessionAssemblies.length ? { sessionAssemblies } : {}),
+        };
     });
 }

package/esm/Assemblies/TemporaryAssembliesMixin.d.ts

@@ -1,8 +1,10 @@
 import type PluginManager from '@jbrowse/core/PluginManager';
 import type { AnyConfiguration } from '@jbrowse/core/configuration';
-export declare function TemporaryAssembliesMixin(pluginManager: PluginManager, assemblyConfigSchemasType?: import("mobx-state-tree").IType<any, any, any>): import("mobx-state-tree").IModelType<{
-    temporaryAssemblies: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IType<any, any, any>>;
+export declare function TemporaryAssembliesMixin(pluginManager: PluginManager, assemblyConfigSchemasType?: import("@jbrowse/mobx-state-tree").IType<any, any, any>): import("@jbrowse/mobx-state-tree").IModelType<{
+    temporaryAssemblies: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IType<any, any, any>>;
 }, {
     addTemporaryAssembly(conf: AnyConfiguration): any;
     removeTemporaryAssembly(name: string): void;
-}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
+}, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
+    temporaryAssemblies: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IType<any, any, any>>;
+}>>;

package/esm/Assemblies/TemporaryAssembliesMixin.js

@@ -1,4 +1,4 @@
-import { types } from 'mobx-state-tree';
+import { types } from '@jbrowse/mobx-state-tree';
 export function TemporaryAssembliesMixin(pluginManager, assemblyConfigSchemasType = types.frozen()) {
     return types
         .model({
@@ -23,5 +23,15 @@ export function TemporaryAssembliesMixin(pluginManager, assemblyConfigSchemasTyp
                 }
             },
         };
+    })
+        .postProcessSnapshot(snap => {
+        if (!snap) {
+            return snap;
+        }
+        const { temporaryAssemblies, ...rest } = snap;
+        return {
+            ...rest,
+            ...(temporaryAssemblies.length ? { temporaryAssemblies } : {}),
+        };
     });
 }

package/esm/Assemblies/index.d.ts

@@ -1,2 +1,2 @@
-export * from './SessionAssembliesMixin';
-export * from './TemporaryAssembliesMixin';
+export * from './SessionAssembliesMixin.ts';
+export * from './TemporaryAssembliesMixin.ts';

package/esm/Assemblies/index.js

@@ -1,2 +1,2 @@
-export * from './SessionAssembliesMixin';
-export * from './TemporaryAssembliesMixin';
+export * from "./SessionAssembliesMixin.js";
+export * from "./TemporaryAssembliesMixin.js";

package/esm/DockviewLayout/index.d.ts

@@ -0,0 +1,26 @@
+import type { IAnyStateTreeNode, Instance } from '@jbrowse/mobx-state-tree';
+import type { SerializedDockview } from 'dockview-react';
+export declare function DockviewLayoutMixin(): import("@jbrowse/mobx-state-tree").IModelType<{
+    dockviewLayout: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IType<SerializedDockview, SerializedDockview, SerializedDockview>>;
+    panelViewAssignments: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IMapType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").ISimpleType<string>>>, [undefined]>;
+    activePanelId: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
+}, {
+    getViewIdsForPanel(panelId: string): never[] | (import("@jbrowse/mobx-state-tree").IMSTArray<import("@jbrowse/mobx-state-tree").ISimpleType<string>> & import("@jbrowse/mobx-state-tree").IStateTreeNode<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").ISimpleType<string>>>);
+} & {
+    setDockviewLayout(layout: SerializedDockview | undefined): void;
+    setActivePanelId(panelId: string | undefined): void;
+    assignViewToPanel(panelId: string, viewId: string): void;
+    removeViewFromPanel(viewId: string): void;
+    removePanel(panelId: string): void;
+    moveViewUpInPanel(viewId: string): void;
+    moveViewDownInPanel(viewId: string): void;
+    moveViewToTopInPanel(viewId: string): void;
+    moveViewToBottomInPanel(viewId: string): void;
+}, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree").ModelSnapshotType<{
+    dockviewLayout: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").IType<SerializedDockview, SerializedDockview, SerializedDockview>>;
+    panelViewAssignments: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IMapType<import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").ISimpleType<string>>>, [undefined]>;
+    activePanelId: import("@jbrowse/mobx-state-tree").IMaybe<import("@jbrowse/mobx-state-tree").ISimpleType<string>>;
+}>>;
+export type DockviewLayoutMixinType = ReturnType<typeof DockviewLayoutMixin>;
+export type SessionWithDockviewLayout = Instance<DockviewLayoutMixinType>;
+export declare function isSessionWithDockviewLayout(session: IAnyStateTreeNode): session is SessionWithDockviewLayout;

package/esm/DockviewLayout/index.js

@@ -0,0 +1,107 @@
+import { types } from '@jbrowse/mobx-state-tree';
+export function DockviewLayoutMixin() {
+    return types
+        .model({
+        dockviewLayout: types.maybe(types.frozen()),
+        panelViewAssignments: types.optional(types.map(types.array(types.string)), {}),
+        activePanelId: types.maybe(types.string),
+    })
+        .views(self => ({
+        getViewIdsForPanel(panelId) {
+            return self.panelViewAssignments.get(panelId) ?? [];
+        },
+    }))
+        .actions(self => ({
+        setDockviewLayout(layout) {
+            self.dockviewLayout = layout;
+        },
+        setActivePanelId(panelId) {
+            self.activePanelId = panelId;
+        },
+        assignViewToPanel(panelId, viewId) {
+            const existing = self.panelViewAssignments.get(panelId);
+            if (existing) {
+                if (!existing.includes(viewId)) {
+                    existing.push(viewId);
+                }
+            }
+            else {
+                self.panelViewAssignments.set(panelId, [viewId]);
+            }
+        },
+        removeViewFromPanel(viewId) {
+            for (const [panelId, viewIds] of self.panelViewAssignments.entries()) {
+                const idx = viewIds.indexOf(viewId);
+                if (idx !== -1) {
+                    viewIds.splice(idx, 1);
+                    if (viewIds.length === 0) {
+                        self.panelViewAssignments.delete(panelId);
+                    }
+                    break;
+                }
+            }
+        },
+        removePanel(panelId) {
+            self.panelViewAssignments.delete(panelId);
+        },
+        moveViewUpInPanel(viewId) {
+            for (const viewIds of self.panelViewAssignments.values()) {
+                const idx = viewIds.indexOf(viewId);
+                if (idx > 0) {
+                    const temp = viewIds[idx - 1];
+                    viewIds[idx - 1] = viewIds[idx];
+                    viewIds[idx] = temp;
+                    break;
+                }
+            }
+        },
+        moveViewDownInPanel(viewId) {
+            for (const viewIds of self.panelViewAssignments.values()) {
+                const idx = viewIds.indexOf(viewId);
+                if (idx !== -1 && idx < viewIds.length - 1) {
+                    const temp = viewIds[idx + 1];
+                    viewIds[idx + 1] = viewIds[idx];
+                    viewIds[idx] = temp;
+                    break;
+                }
+            }
+        },
+        moveViewToTopInPanel(viewId) {
+            for (const viewIds of self.panelViewAssignments.values()) {
+                const idx = viewIds.indexOf(viewId);
+                if (idx > 0) {
+                    viewIds.splice(idx, 1);
+                    viewIds.unshift(viewId);
+                    break;
+                }
+            }
+        },
+        moveViewToBottomInPanel(viewId) {
+            for (const viewIds of self.panelViewAssignments.values()) {
+                const idx = viewIds.indexOf(viewId);
+                if (idx !== -1 && idx < viewIds.length - 1) {
+                    viewIds.splice(idx, 1);
+                    viewIds.push(viewId);
+                    break;
+                }
+            }
+        },
+    }))
+        .postProcessSnapshot(snap => {
+        if (!snap) {
+            return snap;
+        }
+        const { dockviewLayout, panelViewAssignments, activePanelId, ...rest } = snap;
+        return {
+            ...rest,
+            ...(dockviewLayout !== undefined ? { dockviewLayout } : {}),
+            ...(panelViewAssignments && Object.keys(panelViewAssignments).length
+                ? { panelViewAssignments }
+                : {}),
+            ...(activePanelId !== undefined ? { activePanelId } : {}),
+        };
+    });
+}
+export function isSessionWithDockviewLayout(session) {
+    return 'dockviewLayout' in session && 'setDockviewLayout' in session;
+}

package/esm/HistoryManagement/index.d.ts

@@ -1,7 +1,7 @@
-export declare function HistoryManagementMixin(): import("mobx-state-tree").IModelType<{
-    history: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IModelType<{
-        undoIdx: import("mobx-state-tree").IType<number | undefined, number, number>;
-        targetPath: import("mobx-state-tree").IType<string | undefined, string, string>;
+export declare function HistoryManagementMixin(): import("@jbrowse/mobx-state-tree").IModelType<{
+    history: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IModelType<{
+        undoIdx: import("@jbrowse/mobx-state-tree").IType<number | undefined, number, number>;
+        targetPath: import("@jbrowse/mobx-state-tree").IType<string | undefined, string, string>;
     }, {
         history: unknown[];
         notTrackingUndo: boolean;
@@ -11,13 +11,13 @@ export declare function HistoryManagementMixin(): import("mobx-state-tree").IMod
     } & {
         stopTrackingUndo(): void;
         resumeTrackingUndo(): void;
-        addUndoState(todos: unknown): void;
+        addUndoState(snapshot: unknown): void;
         beforeDestroy(): void;
         initialize(): void;
         undo(): void;
         redo(): void;
-    }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>, [undefined]>;
+    }, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>, [undefined]>;
 }, {
     afterCreate(): void;
     beforeDestroy(): void;
-}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
+}, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>;

package/esm/HistoryManagement/index.js

@@ -1,6 +1,6 @@
 import TimeTraveller from '@jbrowse/core/util/TimeTraveller';
+import { addDisposer, types } from '@jbrowse/mobx-state-tree';
 import { autorun } from 'mobx';
-import { addDisposer, types } from 'mobx-state-tree';
 export function HistoryManagementMixin() {
     return types
         .model({
@@ -8,30 +8,29 @@ export function HistoryManagementMixin() {
     })
         .actions(self => {
         const keydownListener = (e) => {
-            var _a, _b;
             if (self.history.canRedo &&
                 (((e.ctrlKey || e.metaKey) && e.shiftKey && e.code === 'KeyZ') ||
                     (e.ctrlKey && !e.shiftKey && e.code === 'KeyY')) &&
-                ((_a = document.activeElement) === null || _a === void 0 ? void 0 : _a.tagName.toUpperCase()) !== 'INPUT') {
+                document.activeElement?.tagName.toUpperCase() !== 'INPUT') {
                 self.history.redo();
             }
             if (self.history.canUndo &&
                 (e.ctrlKey || e.metaKey) &&
                 !e.shiftKey &&
                 e.code === 'KeyZ' &&
-                ((_b = document.activeElement) === null || _b === void 0 ? void 0 : _b.tagName.toUpperCase()) !== 'INPUT') {
+                document.activeElement?.tagName.toUpperCase() !== 'INPUT') {
                 self.history.undo();
             }
         };
         return {
             afterCreate() {
                 document.addEventListener('keydown', keydownListener);
-                addDisposer(self, autorun(() => {
+                addDisposer(self, autorun(function historyInitAutorun() {
                     const { session } = self;
                     if (session) {
                         self.history.initialize();
                     }
-                }));
+                }, { name: 'HistoryInit' }));
             },
             beforeDestroy() {
                 document.removeEventListener('keydown', keydownListener);

package/esm/JBrowseConfig/RootConfiguration.d.ts

@@ -1,20 +1,20 @@
 import type PluginManager from '@jbrowse/core/PluginManager';
 export default function RootConfiguration({ pluginManager, }: {
     pluginManager: PluginManager;
-}): import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
-    rpc: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+}): import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaType<{
+    rpc: import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaType<{
         defaultDriver: {
             type: string;
             description: string;
             defaultValue: string;
         };
-        drivers: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IMapType<import("mobx-state-tree").ITypeUnion<import("mobx-state-tree").ModelCreationType<import("mobx-state-tree/dist/internal").ExtractCFromProps<Record<string, any>>> | undefined, import("mobx-state-tree").ModelSnapshotType<Record<string, any>>, ({} & Partial<import("mobx-state-tree/dist/internal").ExtractCFromProps<Record<string, any>>> & import("mobx-state-tree/dist/internal").NonEmptyObject) | undefined>>, [undefined]>;
-    }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+        drivers: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IMapType<import("@jbrowse/mobx-state-tree").ITypeUnion<import("@jbrowse/mobx-state-tree").ModelCreationType<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<Record<string, any>>> | undefined, import("@jbrowse/mobx-state-tree").ModelSnapshotType<Record<string, any>>, ({} & Partial<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<Record<string, any>>> & import("@jbrowse/mobx-state-tree/dist/internal").NonEmptyObject) | undefined>>, [undefined]>;
+    }, import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
     highResolutionScaling: {
         type: string;
         defaultValue: number;
     };
-    formatDetails: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+    formatDetails: import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaType<{
         feature: {
             type: string;
             description: string;
@@ -37,8 +37,8 @@ export default function RootConfiguration({ pluginManager, }: {
             defaultValue: number;
             description: string;
         };
-    }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
-    formatAbout: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+    }, import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+    formatAbout: import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaType<{
         config: {
             type: string;
             description: string;
@@ -49,7 +49,7 @@ export default function RootConfiguration({ pluginManager, }: {
             type: string;
             defaultValue: boolean;
         };
-    }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+    }, import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
     shareURL: {
         type: string;
         defaultValue: string;
@@ -58,8 +58,8 @@ export default function RootConfiguration({ pluginManager, }: {
         type: string;
         defaultValue: boolean;
     };
-    hierarchical: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
-        sort: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+    hierarchical: import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaType<{
+        sort: import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaType<{
             trackNames: {
                 type: string;
                 defaultValue: boolean;
@@ -68,8 +68,8 @@ export default function RootConfiguration({ pluginManager, }: {
                 type: string;
                 defaultValue: boolean;
             };
-        }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
-        defaultCollapsed: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+        }, import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+        defaultCollapsed: import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaType<{
             categoryNames: {
                 type: string;
                 defaultValue: never[];
@@ -82,8 +82,8 @@ export default function RootConfiguration({ pluginManager, }: {
                 type: string;
                 defaultValue: boolean;
             };
-        }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
-    }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+        }, import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+    }, import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
     theme: {
         type: string;
         defaultValue: {};
@@ -99,4 +99,4 @@ export default function RootConfiguration({ pluginManager, }: {
             locationType: string;
         };
     };
-}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+}, import("node_modules/@jbrowse/core/src/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;

package/esm/JBrowseConfig/index.d.ts

@@ -4,21 +4,22 @@ import type { AnyConfigurationSchemaType } from '@jbrowse/core/configuration';
 export declare function JBrowseConfigF({ pluginManager, assemblyConfigSchema, }: {
     pluginManager: PluginManager;
     assemblyConfigSchema: AnyConfigurationSchemaType;
-}): import("mobx-state-tree").IModelType<{
-    configuration: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
-        rpc: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+    adminMode?: boolean;
+}): import("@jbrowse/mobx-state-tree").IModelType<{
+    configuration: import("node_modules/@jbrowse/core/src/configuration/configurationSchema.ts").ConfigurationSchemaType<{
+        rpc: import("node_modules/@jbrowse/core/src/configuration/configurationSchema.ts").ConfigurationSchemaType<{
             defaultDriver: {
                 type: string;
                 description: string;
                 defaultValue: string;
             };
-            drivers: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IMapType<import("mobx-state-tree").ITypeUnion<import("mobx-state-tree").ModelCreationType<import("mobx-state-tree/dist/internal").ExtractCFromProps<Record<string, any>>> | undefined, import("mobx-state-tree").ModelSnapshotType<Record<string, any>>, ({} & Partial<import("mobx-state-tree/dist/internal").ExtractCFromProps<Record<string, any>>> & import("mobx-state-tree/dist/internal").NonEmptyObject) | undefined>>, [undefined]>;
-        }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+            drivers: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IMapType<import("@jbrowse/mobx-state-tree").ITypeUnion<import("@jbrowse/mobx-state-tree").ModelCreationType<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<Record<string, any>>> | undefined, import("@jbrowse/mobx-state-tree").ModelSnapshotType<Record<string, any>>, ({} & Partial<import("@jbrowse/mobx-state-tree/dist/internal").ExtractCFromProps<Record<string, any>>> & import("@jbrowse/mobx-state-tree/dist/internal").NonEmptyObject) | undefined>>, [undefined]>;
+        }, import("node_modules/@jbrowse/core/src/configuration/configurationSchema.ts").ConfigurationSchemaOptions<undefined, undefined>>;
         highResolutionScaling: {
             type: string;
             defaultValue: number;
         };
-        formatDetails: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+        formatDetails: import("node_modules/@jbrowse/core/src/configuration/configurationSchema.ts").ConfigurationSchemaType<{
             feature: {
                 type: string;
                 description: string;
@@ -41,8 +42,8 @@ export declare function JBrowseConfigF({ pluginManager, assemblyConfigSchema, }:
                 defaultValue: number;
                 description: string;
             };
-        }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
-        formatAbout: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+        }, import("node_modules/@jbrowse/core/src/configuration/configurationSchema.ts").ConfigurationSchemaOptions<undefined, undefined>>;
+        formatAbout: import("node_modules/@jbrowse/core/src/configuration/configurationSchema.ts").ConfigurationSchemaType<{
             config: {
                 type: string;
                 description: string;
@@ -53,7 +54,7 @@ export declare function JBrowseConfigF({ pluginManager, assemblyConfigSchema, }:
                 type: string;
                 defaultValue: boolean;
             };
-        }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+        }, import("node_modules/@jbrowse/core/src/configuration/configurationSchema.ts").ConfigurationSchemaOptions<undefined, undefined>>;
         shareURL: {
             type: string;
             defaultValue: string;
@@ -62,8 +63,8 @@ export declare function JBrowseConfigF({ pluginManager, assemblyConfigSchema, }:
             type: string;
             defaultValue: boolean;
         };
-        hierarchical: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
-            sort: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+        hierarchical: import("node_modules/@jbrowse/core/src/configuration/configurationSchema.ts").ConfigurationSchemaType<{
+            sort: import("node_modules/@jbrowse/core/src/configuration/configurationSchema.ts").ConfigurationSchemaType<{
                 trackNames: {
                     type: string;
                     defaultValue: boolean;
@@ -72,8 +73,8 @@ export declare function JBrowseConfigF({ pluginManager, assemblyConfigSchema, }:
                     type: string;
                     defaultValue: boolean;
                 };
-            }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
-            defaultCollapsed: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+            }, import("node_modules/@jbrowse/core/src/configuration/configurationSchema.ts").ConfigurationSchemaOptions<undefined, undefined>>;
+            defaultCollapsed: import("node_modules/@jbrowse/core/src/configuration/configurationSchema.ts").ConfigurationSchemaType<{
                 categoryNames: {
                     type: string;
                     defaultValue: never[];
@@ -86,8 +87,8 @@ export declare function JBrowseConfigF({ pluginManager, assemblyConfigSchema, }:
                     type: string;
                     defaultValue: boolean;
                 };
-            }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
-        }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
+            }, import("node_modules/@jbrowse/core/src/configuration/configurationSchema.ts").ConfigurationSchemaOptions<undefined, undefined>>;
+        }, import("node_modules/@jbrowse/core/src/configuration/configurationSchema.ts").ConfigurationSchemaOptions<undefined, undefined>>;
         theme: {
             type: string;
             defaultValue: {};
@@ -103,13 +104,22 @@ export declare function JBrowseConfigF({ pluginManager, assemblyConfigSchema, }:
                 locationType: string;
             };
         };
-    }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
-    plugins: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IType<PluginDefinition, PluginDefinition, PluginDefinition>>;
-    assemblies: import("mobx-state-tree").IArrayType<AnyConfigurationSchemaType>;
-    tracks: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyModelType>;
-    internetAccounts: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyModelType>;
-    aggregateTextSearchAdapters: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyModelType>;
-    connections: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyModelType>;
-    defaultSession: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").IType<any, any, any>, [undefined]>;
-    preConfiguredSessions: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IType<any, any, any>>;
-}, {}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
+    }, import("node_modules/@jbrowse/core/src/configuration/configurationSchema.ts").ConfigurationSchemaOptions<undefined, undefined>>;
+    plugins: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IType<PluginDefinition, PluginDefinition, PluginDefinition>>;
+    assemblies: import("@jbrowse/mobx-state-tree").IArrayType<AnyConfigurationSchemaType>;
+    tracks: import("@jbrowse/mobx-state-tree").IType<{
+        [key: string]: unknown;
+        trackId: string;
+    }[] | null | undefined, {
+        [key: string]: unknown;
+        trackId: string;
+    }[], {
+        [key: string]: unknown;
+        trackId: string;
+    }[]>;
+    internetAccounts: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyModelType>;
+    aggregateTextSearchAdapters: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyModelType>;
+    connections: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IAnyModelType>;
+    defaultSession: import("@jbrowse/mobx-state-tree").IOptionalIType<import("@jbrowse/mobx-state-tree").IType<any, any, any>, [undefined]>;
+    preConfiguredSessions: import("@jbrowse/mobx-state-tree").IArrayType<import("@jbrowse/mobx-state-tree").IType<any, any, any>>;
+}, {}, import("@jbrowse/mobx-state-tree")._NotCustomized, import("@jbrowse/mobx-state-tree")._NotCustomized>;