@jbrowse/product-core 3.7.0 → 4.0.0

package/dist/RootModel/HierarchicalConfig.d.ts

@@ -1,26 +0,0 @@
-export declare function HierarchicalConfigSchemaFactory(): import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
-    sort: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
-        trackNames: {
-            type: string;
-            defaultValue: boolean;
-        };
-        categories: {
-            type: string;
-            defaultValue: boolean;
-        };
-    }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
-    defaultCollapsed: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
-        categoryNames: {
-            type: string;
-            defaultValue: never[];
-        };
-        topLevelCategories: {
-            type: string;
-            defaultValue: boolean;
-        };
-        subCategories: {
-            type: string;
-            defaultValue: boolean;
-        };
-    }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
-}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;

package/dist/RootModel/HierarchicalConfig.js

@@ -1,32 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.HierarchicalConfigSchemaFactory = HierarchicalConfigSchemaFactory;
-const configuration_1 = require("@jbrowse/core/configuration");
-function HierarchicalConfigSchemaFactory() {
-    return (0, configuration_1.ConfigurationSchema)('hierarchical', {
-        sort: (0, configuration_1.ConfigurationSchema)('hierarchicalSort', {
-            trackNames: {
-                type: 'boolean',
-                defaultValue: false,
-            },
-            categories: {
-                type: 'boolean',
-                defaultValue: false,
-            },
-        }),
-        defaultCollapsed: (0, configuration_1.ConfigurationSchema)('defaultCollapsed', {
-            categoryNames: {
-                type: 'stringArray',
-                defaultValue: [],
-            },
-            topLevelCategories: {
-                type: 'boolean',
-                defaultValue: false,
-            },
-            subCategories: {
-                type: 'boolean',
-                defaultValue: false,
-            },
-        }),
-    });
-}

package/dist/RootModel/InternetAccounts.d.ts

@@ -1,15 +0,0 @@
-import type PluginManager from '@jbrowse/core/PluginManager';
-import type { AnyConfigurationModel } from '@jbrowse/core/configuration';
-import type { UriLocation } from '@jbrowse/core/util';
-import type { Instance } from 'mobx-state-tree';
-export declare function InternetAccountsRootModelMixin(pluginManager: PluginManager): import("mobx-state-tree").IModelType<{
-    internetAccounts: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyType>;
-}, {
-    initializeInternetAccount(internetAccountConfig: AnyConfigurationModel, initialSnapshot?: {}): any;
-    createEphemeralInternetAccount(internetAccountId: string, initialSnapshot: Record<string, unknown>, url: string): any;
-    findAppropriateInternetAccount(location: UriLocation): any;
-} & {
-    afterCreate(): void;
-}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
-export type RootModelWithInternetAccountsType = ReturnType<typeof InternetAccountsRootModelMixin>;
-export type RootModelWithInternetAccounts = Instance<RootModelWithInternetAccountsType>;

package/dist/RootModel/InternetAccounts.js

@@ -1,79 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.InternetAccountsRootModelMixin = InternetAccountsRootModelMixin;
-const mobx_1 = require("mobx");
-const mobx_state_tree_1 = require("mobx-state-tree");
-function InternetAccountsRootModelMixin(pluginManager) {
-    return mobx_state_tree_1.types
-        .model({
-        internetAccounts: mobx_state_tree_1.types.array(pluginManager.pluggableMstType('internet account', 'stateModel')),
-    })
-        .actions(self => ({
-        initializeInternetAccount(internetAccountConfig, initialSnapshot = {}) {
-            const internetAccountType = pluginManager.getInternetAccountType(internetAccountConfig.type);
-            if (!internetAccountType) {
-                throw new Error(`unknown internet account type ${internetAccountConfig.type}`);
-            }
-            const length = self.internetAccounts.push({
-                ...initialSnapshot,
-                type: internetAccountConfig.type,
-                configuration: internetAccountConfig,
-            });
-            return self.internetAccounts[length - 1];
-        },
-        createEphemeralInternetAccount(internetAccountId, initialSnapshot, url) {
-            let hostUri;
-            try {
-                hostUri = new URL(url).origin;
-            }
-            catch (e) {
-            }
-            const internetAccountSplit = internetAccountId.split('-');
-            const configuration = {
-                type: internetAccountSplit[0],
-                internetAccountId: internetAccountId,
-                name: internetAccountSplit.slice(1).join('-'),
-                description: '',
-                domains: hostUri ? [hostUri] : [],
-            };
-            const type = pluginManager.getInternetAccountType(configuration.type);
-            const internetAccount = type.stateModel.create({
-                ...initialSnapshot,
-                type: configuration.type,
-                configuration,
-            });
-            self.internetAccounts.push(internetAccount);
-            return internetAccount;
-        },
-        findAppropriateInternetAccount(location) {
-            const selectedId = location.internetAccountId;
-            if (selectedId) {
-                const selectedAccount = self.internetAccounts.find(account => {
-                    return account.internetAccountId === selectedId;
-                });
-                if (selectedAccount) {
-                    return selectedAccount;
-                }
-            }
-            for (const account of self.internetAccounts) {
-                const handleResult = account.handlesLocation(location);
-                if (handleResult) {
-                    return account;
-                }
-            }
-            return selectedId
-                ? this.createEphemeralInternetAccount(selectedId, {}, location.uri)
-                : null;
-        },
-    }))
-        .actions(self => ({
-        afterCreate() {
-            (0, mobx_state_tree_1.addDisposer)(self, (0, mobx_1.autorun)(() => {
-                const { jbrowse } = self;
-                for (const internetAccount of jbrowse.internetAccounts) {
-                    self.initializeInternetAccount(internetAccount);
-                }
-            }));
-        },
-    }));
-}

package/dist/RootModel/index.d.ts

@@ -1,5 +0,0 @@
-export * from './BaseRootModel';
-export * from './InternetAccounts';
-export * from './FormatAbout';
-export * from './FormatDetails';
-export * from './HierarchicalConfig';

package/dist/RootModel/index.js

@@ -1,21 +0,0 @@
-"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 __exportStar = (this && this.__exportStar) || function(m, exports) {
-    for (var p in m) if (p !== "default" && !Object.prototype.hasOwnProperty.call(exports, p)) __createBinding(exports, m, p);
-};
-Object.defineProperty(exports, "__esModule", { value: true });
-__exportStar(require("./BaseRootModel"), exports);
-__exportStar(require("./InternetAccounts"), exports);
-__exportStar(require("./FormatAbout"), exports);
-__exportStar(require("./FormatDetails"), exports);
-__exportStar(require("./HierarchicalConfig"), exports);

package/dist/Session/BaseSession.d.ts

@@ -1,31 +0,0 @@
-import type { BaseRootModelType } from '../RootModel/BaseRootModel';
-import type PluginManager from '@jbrowse/core/PluginManager';
-import type { BaseAssemblyConfigSchema } from '@jbrowse/core/assemblyManager';
-import type { AnyConfigurationSchemaType } from '@jbrowse/core/configuration';
-import type { IAnyStateTreeNode, Instance } from 'mobx-state-tree';
-export declare function BaseSessionModel<ROOT_MODEL_TYPE extends BaseRootModelType, JB_CONFIG_SCHEMA extends AnyConfigurationSchemaType>(_pluginManager: PluginManager): import("mobx-state-tree").IModelType<{
-    id: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
-    name: import("mobx-state-tree").ISimpleType<string>;
-    margin: import("mobx-state-tree").IType<number | undefined, number, number>;
-}, {
-    selection: unknown;
-    hovered: unknown;
-} & {
-    readonly root: import("mobx-state-tree").TypeOrStateTreeNodeToStateTreeNode<ROOT_MODEL_TYPE>;
-} & {
-    readonly jbrowse: any;
-    readonly rpcManager: import("@jbrowse/core/rpc/RpcManager").default;
-    readonly configuration: Instance<JB_CONFIG_SCHEMA>;
-    readonly adminMode: boolean;
-    readonly textSearchManager: import("@jbrowse/core/util").TextSearchManager;
-} & {
-    readonly assemblies: Instance<BaseAssemblyConfigSchema>[];
-} & {
-    setSelection(thing: unknown): void;
-    clearSelection(): void;
-    setHovered(thing: unknown): void;
-}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
-export type BaseSessionType = ReturnType<typeof BaseSessionModel>;
-export type BaseSession = Instance<BaseSessionType>;
-export declare function isBaseSession(thing: IAnyStateTreeNode): thing is BaseSession;
-export declare function isSession(thing: unknown): thing is BaseSession;

package/dist/Session/BaseSession.js

@@ -1,63 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.BaseSessionModel = BaseSessionModel;
-exports.isBaseSession = isBaseSession;
-exports.isSession = isSession;
-const mst_1 = require("@jbrowse/core/util/types/mst");
-const mobx_state_tree_1 = require("mobx-state-tree");
-function BaseSessionModel(_pluginManager) {
-    return mobx_state_tree_1.types
-        .model({
-        id: mst_1.ElementId,
-        name: mobx_state_tree_1.types.string,
-        margin: 0,
-    })
-        .volatile(() => ({
-        selection: undefined,
-        hovered: undefined,
-    }))
-        .views(self => ({
-        get root() {
-            return (0, mobx_state_tree_1.getParent)(self);
-        },
-    }))
-        .views(self => ({
-        get jbrowse() {
-            return self.root.jbrowse;
-        },
-        get rpcManager() {
-            return self.root.rpcManager;
-        },
-        get configuration() {
-            return this.jbrowse.configuration;
-        },
-        get adminMode() {
-            return self.root.adminMode;
-        },
-        get textSearchManager() {
-            return self.root.textSearchManager;
-        },
-    }))
-        .views(self => ({
-        get assemblies() {
-            return self.jbrowse.assemblies;
-        },
-    }))
-        .actions(self => ({
-        setSelection(thing) {
-            self.selection = thing;
-        },
-        clearSelection() {
-            self.selection = undefined;
-        },
-        setHovered(thing) {
-            self.hovered = thing;
-        },
-    }));
-}
-function isBaseSession(thing) {
-    return 'id' in thing && 'name' in thing && 'root' in thing;
-}
-function isSession(thing) {
-    return (0, mobx_state_tree_1.isStateTreeNode)(thing) && isBaseSession(thing);
-}

package/dist/Session/Connections.d.ts

@@ -1,158 +0,0 @@
-import type PluginManager from '@jbrowse/core/PluginManager';
-import type { AnyConfigurationModel } from '@jbrowse/core/configuration';
-import type { BaseConnectionConfigModel } from '@jbrowse/core/pluggableElementTypes/models/baseConnectionConfig';
-import type { IAnyStateTreeNode, Instance } from 'mobx-state-tree';
-export declare function ConnectionManagementSessionMixin(pluginManager: PluginManager): import("mobx-state-tree").IModelType<{
-    connectionInstances: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IModelType<{
-        name: import("mobx-state-tree").ISimpleType<string>;
-        tracks: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyModelType>;
-        configuration: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
-            name: {
-                type: string;
-                defaultValue: string;
-                description: string;
-            };
-            assemblyNames: {
-                type: string;
-                defaultValue: never[];
-                description: string;
-            };
-        }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "connectionId">>;
-    }, {
-        connect(_arg: AnyConfigurationModel): void;
-    } & {
-        afterAttach(): void;
-        addTrackConf(trackConf: ({
-            [x: string]: any;
-        } & import("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 & {
-                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").AnyConfigurationSchemaType>) | Record<string, unknown>): any;
-        addTrackConfs(trackConfs: (({
-            [x: string]: any;
-        } & import("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 & {
-                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").AnyConfigurationSchemaType>) | Record<string, unknown>)[]): void;
-        setTrackConfs(trackConfs: AnyConfigurationModel[]): void;
-        clear(): void;
-    }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
-}, {
-    readonly connections: BaseConnectionConfigModel[];
-} & {
-    makeConnection(configuration: AnyConfigurationModel, initialSnapshot?: {}): ({
-        name: string;
-        tracks: import("mobx-state-tree").IMSTArray<import("mobx-state-tree").IAnyModelType> & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyModelType>>;
-        configuration: {
-            [x: string]: any;
-        } & import("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 & {
-                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<{
-            name: {
-                type: string;
-                defaultValue: string;
-                description: string;
-            };
-            assemblyNames: {
-                type: string;
-                defaultValue: never[];
-                description: string;
-            };
-        }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "connectionId">>>;
-    } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
-        connect(_arg: AnyConfigurationModel): void;
-    } & {
-        afterAttach(): void;
-        addTrackConf(trackConf: ({
-            [x: string]: any;
-        } & import("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 & {
-                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").AnyConfigurationSchemaType>) | Record<string, unknown>): any;
-        addTrackConfs(trackConfs: (({
-            [x: string]: any;
-        } & import("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 & {
-                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").AnyConfigurationSchemaType>) | Record<string, unknown>)[]): void;
-        setTrackConfs(trackConfs: AnyConfigurationModel[]): void;
-        clear(): void;
-    } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
-        name: import("mobx-state-tree").ISimpleType<string>;
-        tracks: import("mobx-state-tree").IArrayType<import("mobx-state-tree").IAnyModelType>;
-        configuration: import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
-            name: {
-                type: string;
-                defaultValue: string;
-                description: string;
-            };
-            assemblyNames: {
-                type: string;
-                defaultValue: never[];
-                description: string;
-            };
-        }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "connectionId">>;
-    }, {
-        connect(_arg: AnyConfigurationModel): void;
-    } & {
-        afterAttach(): void;
-        addTrackConf(trackConf: ({
-            [x: string]: any;
-        } & import("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 & {
-                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").AnyConfigurationSchemaType>) | Record<string, unknown>): any;
-        addTrackConfs(trackConfs: (({
-            [x: string]: any;
-        } & import("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 & {
-                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").AnyConfigurationSchemaType>) | Record<string, unknown>)[]): void;
-        setTrackConfs(trackConfs: AnyConfigurationModel[]): void;
-        clear(): void;
-    }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>) | undefined;
-    prepareToBreakConnection(configuration: AnyConfigurationModel): (Record<string, number> | (() => void))[] | undefined;
-    breakConnection(configuration: AnyConfigurationModel): void;
-    deleteConnection(configuration: AnyConfigurationModel): any;
-    addConnectionConf(connectionConf: AnyConfigurationModel): any;
-    clearConnections(): void;
-}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
-export type SessionWithConnectionsType = ReturnType<typeof ConnectionManagementSessionMixin>;
-export type SessionWithConnections = Instance<SessionWithConnectionsType>;
-export declare function isSessionWithConnections(session: IAnyStateTreeNode): session is SessionWithConnections;

package/dist/Session/Connections.js

@@ -1,84 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.ConnectionManagementSessionMixin = ConnectionManagementSessionMixin;
-exports.isSessionWithConnections = isSessionWithConnections;
-const configuration_1 = require("@jbrowse/core/configuration");
-const mobx_state_tree_1 = require("mobx-state-tree");
-const BaseSession_1 = require("./BaseSession");
-function ConnectionManagementSessionMixin(pluginManager) {
-    return mobx_state_tree_1.types
-        .model({
-        connectionInstances: mobx_state_tree_1.types.array(pluginManager.pluggableMstType('connection', 'stateModel')),
-    })
-        .views(self => ({
-        get connections() {
-            const { jbrowse } = self;
-            return jbrowse.connections;
-        },
-    }))
-        .actions(self => ({
-        makeConnection(configuration, initialSnapshot = {}) {
-            const type = configuration.type;
-            if (!type) {
-                throw new Error('track configuration has no `type` listed');
-            }
-            const name = (0, configuration_1.readConfObject)(configuration, 'name');
-            const connectionType = pluginManager.getConnectionType(type);
-            if (!connectionType) {
-                throw new Error(`unknown connection type ${type}`);
-            }
-            const length = self.connectionInstances.push({
-                ...initialSnapshot,
-                name,
-                type,
-                configuration,
-            });
-            return self.connectionInstances[length - 1];
-        },
-        prepareToBreakConnection(configuration) {
-            const root = self;
-            const callbacksToDeref = [];
-            const derefTypeCount = {};
-            const name = (0, configuration_1.readConfObject)(configuration, 'name');
-            const connection = self.connectionInstances.find(c => c.name === name);
-            if (!connection) {
-                return undefined;
-            }
-            for (const track of connection.tracks) {
-                const ref = root.getReferring(track);
-                root.removeReferring(ref, track, callbacksToDeref, derefTypeCount);
-            }
-            return [
-                () => {
-                    for (const cb of callbacksToDeref) {
-                        cb();
-                    }
-                    this.breakConnection(configuration);
-                },
-                derefTypeCount,
-            ];
-        },
-        breakConnection(configuration) {
-            const name = (0, configuration_1.readConfObject)(configuration, 'name');
-            const connection = self.connectionInstances.find(c => c.name === name);
-            if (!connection) {
-                throw new Error(`no connection found with name ${name}`);
-            }
-            self.connectionInstances.remove(connection);
-        },
-        deleteConnection(configuration) {
-            const { jbrowse } = self;
-            return jbrowse.deleteConnectionConf(configuration);
-        },
-        addConnectionConf(connectionConf) {
-            const { jbrowse } = self;
-            return jbrowse.addConnectionConf(connectionConf);
-        },
-        clearConnections() {
-            self.connectionInstances.clear();
-        },
-    }));
-}
-function isSessionWithConnections(session) {
-    return (0, BaseSession_1.isBaseSession)(session) && 'connectionInstances' in session;
-}

package/dist/Session/DialogQueue.d.ts

@@ -1,15 +0,0 @@
-import type PluginManager from '@jbrowse/core/PluginManager';
-import type { DialogComponentType } from '@jbrowse/core/util';
-import type { IAnyStateTreeNode, Instance } from 'mobx-state-tree';
-export declare function DialogQueueSessionMixin(_pluginManager: PluginManager): import("mobx-state-tree").IModelType<{}, {
-    queueOfDialogs: [DialogComponentType, unknown][];
-} & {
-    readonly DialogComponent: DialogComponentType | undefined;
-    readonly DialogProps: unknown;
-} & {
-    removeActiveDialog(): void;
-    queueDialog(cb: (doneCallback: () => void) => [DialogComponentType, unknown]): void;
-}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
-export type SessionWithDialogsType = ReturnType<typeof DialogQueueSessionMixin>;
-export type SessionWithDialogs = Instance<SessionWithDialogsType>;
-export declare function isSessionWithDialogs(session: IAnyStateTreeNode): session is SessionWithDialogs;

package/dist/Session/DialogQueue.js

@@ -1,37 +0,0 @@
-"use strict";
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.DialogQueueSessionMixin = DialogQueueSessionMixin;
-exports.isSessionWithDialogs = isSessionWithDialogs;
-const mobx_state_tree_1 = require("mobx-state-tree");
-const BaseSession_1 = require("./BaseSession");
-function DialogQueueSessionMixin(_pluginManager) {
-    return mobx_state_tree_1.types
-        .model('DialogQueueSessionMixin', {})
-        .volatile(() => ({
-        queueOfDialogs: [],
-    }))
-        .views(self => ({
-        get DialogComponent() {
-            var _a;
-            return (_a = self.queueOfDialogs[0]) === null || _a === void 0 ? void 0 : _a[0];
-        },
-        get DialogProps() {
-            var _a;
-            return (_a = self.queueOfDialogs[0]) === null || _a === void 0 ? void 0 : _a[1];
-        },
-    }))
-        .actions(self => ({
-        removeActiveDialog() {
-            self.queueOfDialogs = self.queueOfDialogs.slice(1);
-        },
-        queueDialog(cb) {
-            const [component, props] = cb(() => {
-                this.removeActiveDialog();
-            });
-            self.queueOfDialogs = [...self.queueOfDialogs, [component, props]];
-        },
-    }));
-}
-function isSessionWithDialogs(session) {
-    return (0, BaseSession_1.isBaseSession)(session) && 'queueOfDialogs' in session;
-}

package/dist/Session/DrawerWidgets.d.ts

@@ -1,28 +0,0 @@
-import type PluginManager from '@jbrowse/core/PluginManager';
-import type { AnyConfigurationModel } from '@jbrowse/core/configuration';
-import type { IAnyStateTreeNode, Instance } from 'mobx-state-tree';
-export declare function DrawerWidgetSessionMixin(pluginManager: PluginManager): import("mobx-state-tree").IModelType<{
-    drawerPosition: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<string>, [undefined]>;
-    drawerWidth: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<number>, [undefined]>;
-    widgets: import("mobx-state-tree").IMapType<import("mobx-state-tree").IAnyType>;
-    activeWidgets: import("mobx-state-tree").IMapType<import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<import("mobx-state-tree").IAnyType>>>;
-    minimized: import("mobx-state-tree").IOptionalIType<import("mobx-state-tree").ISimpleType<boolean>, [undefined]>;
-}, {
-    readonly visibleWidget: any;
-} & {
-    setDrawerPosition(arg: string): void;
-    updateDrawerWidth(drawerWidth: number): number;
-    resizeDrawer(distance: number): number;
-    addWidget(typeName: string, id: string, initialState?: {}, conf?: unknown): any;
-    showWidget(widget: any): void;
-    hasWidget(widget: any): boolean;
-    hideWidget(widget: any): void;
-    minimizeWidgetDrawer(): void;
-    showWidgetDrawer(): void;
-    hideAllWidgets(): void;
-    editConfiguration(configuration: AnyConfigurationModel): void;
-    afterAttach(): void;
-}, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>;
-export type SessionWithDrawerWidgetsType = ReturnType<typeof DrawerWidgetSessionMixin>;
-export type SessionWithDrawerWidgets = Instance<SessionWithDrawerWidgetsType>;
-export declare function isSessionWithDrawerWidgets(session: IAnyStateTreeNode): session is SessionWithDrawerWidgets;