@jbrowse/product-core 2.11.2 → 2.12.1

package/dist/RootModel/BaseRootModel.d.ts

@@ -72,14 +72,16 @@ export declare function BaseRootModelFactory({ pluginManager, jbrowseModelType,
         } & {
             setLoaded({ adapterRegionsWithAssembly, refNameAliases, lowerCaseRefNameAliases, cytobands, }: import("@jbrowse/core/assemblyManager/assembly").Loading): void;
             setError(e: unknown): void;
-            setRegions(regions: import("@jbrowse/core/util").Region[]): void;
+            setRegions(regions: import("@jbrowse/core/util" /**
+             * #action
+             */).Region[]): void;
             setRefNameAliases(aliases: {
                 [x: string]: string | undefined;
             }, lcAliases: {
                 [x: string]: string | undefined;
             }): void;
             setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
-            setLoadingP(p?: Promise<void> | undefined): void;
+            setLoadingP(p?: Promise<void>): void;
             load(): Promise<void>;
             loadPre(): Promise<void>;
         } & {
@@ -143,7 +145,7 @@ export declare function BaseRootModelFactory({ pluginManager, jbrowseModelType,
                 [x: string]: string | undefined;
             }): void;
             setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
-            setLoadingP(p?: Promise<void> | undefined): void;
+            setLoadingP(p?: Promise<void>): void;
             load(): Promise<void>;
             loadPre(): Promise<void>;
         } & {
@@ -205,7 +207,7 @@ export declare function BaseRootModelFactory({ pluginManager, jbrowseModelType,
                 [x: string]: string | undefined;
             }): void;
             setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
-            setLoadingP(p?: Promise<void> | undefined): void;
+            setLoadingP(p?: Promise<void>): void;
             load(): Promise<void>;
             loadPre(): Promise<void>;
         } & {
@@ -269,7 +271,7 @@ export declare function BaseRootModelFactory({ pluginManager, jbrowseModelType,
                 [x: string]: string | undefined;
             }): void;
             setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
-            setLoadingP(p?: Promise<void> | undefined): void;
+            setLoadingP(p?: Promise<void>): void;
             load(): Promise<void>;
             loadPre(): Promise<void>;
         } & {
@@ -331,7 +333,7 @@ export declare function BaseRootModelFactory({ pluginManager, jbrowseModelType,
                 [x: string]: string | undefined;
             }): void;
             setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
-            setLoadingP(p?: Promise<void> | undefined): void;
+            setLoadingP(p?: Promise<void>): void;
             load(): Promise<void>;
             loadPre(): Promise<void>;
         } & {
@@ -350,11 +352,7 @@ export declare function BaseRootModelFactory({ pluginManager, jbrowseModelType,
             }>;
         }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>) | undefined;
         readonly assemblyNamesList: any[];
-        readonly assemblyList: ({
-            [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>)[];
+        readonly assemblyList: import("@jbrowse/core/configuration").AnyConfigurationModel[];
         readonly rpcManager: RpcManager;
     } & {
         waitForAssembly(assemblyName: string): Promise<({
@@ -402,7 +400,7 @@ export declare function BaseRootModelFactory({ pluginManager, jbrowseModelType,
                 [x: string]: string | undefined;
             }): void;
             setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
-            setLoadingP(p?: Promise<void> | undefined): void;
+            setLoadingP(p?: Promise<void>): void;
             load(): Promise<void>;
             loadPre(): Promise<void>;
         } & {
@@ -464,7 +462,7 @@ export declare function BaseRootModelFactory({ pluginManager, jbrowseModelType,
                 [x: string]: string | undefined;
             }): void;
             setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
-            setLoadingP(p?: Promise<void> | undefined): void;
+            setLoadingP(p?: Promise<void>): void;
             load(): Promise<void>;
             loadPre(): Promise<void>;
         } & {
@@ -485,7 +483,7 @@ export declare function BaseRootModelFactory({ pluginManager, jbrowseModelType,
         getRefNameMapForAdapter(adapterConf: {
             [x: string]: unknown;
         }, assemblyName: string | undefined, opts: {
-            signal?: AbortSignal | undefined;
+            signal?: AbortSignal;
             sessionId: string;
         }): Promise<{
             [x: string]: string | undefined;
@@ -493,7 +491,7 @@ export declare function BaseRootModelFactory({ pluginManager, jbrowseModelType,
         getReverseRefNameMapForAdapter(adapterConf: {
             [x: string]: unknown;
         }, assemblyName: string | undefined, opts: {
-            signal?: AbortSignal | undefined;
+            signal?: AbortSignal;
             sessionId: string;
         }): Promise<{
             [x: string]: string | undefined;
@@ -501,135 +499,7 @@ export declare function BaseRootModelFactory({ pluginManager, jbrowseModelType,
         isValidRefName(refName: string, assemblyName: string): boolean;
     } & {
         afterAttach(): void;
-        removeAssembly(asm: {
-            configuration: any;
-        } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
-            error: unknown;
-            loaded: boolean;
-            loadingP: Promise<void> | undefined;
-            volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
-            refNameAliases: {
-                [x: string]: string | undefined;
-            } | undefined;
-            lowerCaseRefNameAliases: {
-                [x: string]: string | undefined;
-            } | undefined;
-            cytobands: import("@jbrowse/core/util").Feature[] | undefined;
-        } & {
-            getConf(arg: string): any;
-        } & {
-            readonly initialized: boolean;
-            readonly name: string;
-            readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
-            readonly aliases: string[];
-            readonly displayName: string | undefined;
-            hasName(name: string): boolean;
-            readonly allAliases: string[];
-            readonly allRefNames: string[] | undefined; /**
-             * #action
-             */
-            readonly lowerCaseRefNames: string[] | undefined;
-            readonly allRefNamesWithLowerCase: string[] | undefined;
-            readonly rpcManager: RpcManager;
-            readonly refNameColors: string[];
-        } & {
-            readonly refNames: string[] | undefined;
-        } & {
-            getCanonicalRefName(refName: string): string | undefined;
-            getRefNameColor(refName: string): string | undefined;
-            isValidRefName(refName: string): boolean;
-        } & {
-            setLoaded({ adapterRegionsWithAssembly, refNameAliases, lowerCaseRefNameAliases, cytobands, }: import("@jbrowse/core/assemblyManager/assembly").Loading): void;
-            setError(e: unknown): void;
-            setRegions(regions: import("@jbrowse/core/util").Region[]): void;
-            setRefNameAliases(aliases: {
-                [x: string]: string | undefined;
-            }, lcAliases: {
-                [x: string]: string | undefined;
-            }): void;
-            setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
-            setLoadingP(p?: Promise<void> | undefined): void;
-            load(): Promise<void>;
-            loadPre(): Promise<void>;
-        } & {
-            getAdapterMapEntry(adapterConf: {
-                [x: string]: unknown;
-            }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
-            getRefNameMapForAdapter(adapterConf: {
-                [x: string]: unknown;
-            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
-                [x: string]: string | undefined;
-            }>;
-            getReverseRefNameMapForAdapter(adapterConf: {
-                [x: string]: unknown;
-            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
-                [x: string]: string | undefined;
-            }>;
-        } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
-            configuration: import("mobx-state-tree").IMaybe<import("mobx-state-tree").IReferenceType<IAnyType>>;
-        }, {
-            error: unknown;
-            loaded: boolean;
-            loadingP: Promise<void> | undefined;
-            volatileRegions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
-            refNameAliases: {
-                [x: string]: string | undefined;
-            } | undefined;
-            lowerCaseRefNameAliases: {
-                [x: string]: string | undefined;
-            } | undefined;
-            cytobands: import("@jbrowse/core/util").Feature[] | undefined;
-        } & {
-            getConf(arg: string): any;
-        } & {
-            readonly initialized: boolean;
-            readonly name: string;
-            readonly regions: import("@jbrowse/core/assemblyManager/assembly").BasicRegion[] | undefined;
-            readonly aliases: string[];
-            readonly displayName: string | undefined;
-            hasName(name: string): boolean;
-            readonly allAliases: string[];
-            readonly allRefNames: string[] | undefined; /**
-             * #action
-             */
-            readonly lowerCaseRefNames: string[] | undefined;
-            readonly allRefNamesWithLowerCase: string[] | undefined;
-            readonly rpcManager: RpcManager;
-            readonly refNameColors: string[];
-        } & {
-            readonly refNames: string[] | undefined;
-        } & {
-            getCanonicalRefName(refName: string): string | undefined;
-            getRefNameColor(refName: string): string | undefined;
-            isValidRefName(refName: string): boolean;
-        } & {
-            setLoaded({ adapterRegionsWithAssembly, refNameAliases, lowerCaseRefNameAliases, cytobands, }: import("@jbrowse/core/assemblyManager/assembly").Loading): void;
-            setError(e: unknown): void;
-            setRegions(regions: import("@jbrowse/core/util").Region[]): void;
-            setRefNameAliases(aliases: {
-                [x: string]: string | undefined;
-            }, lcAliases: {
-                [x: string]: string | undefined;
-            }): void;
-            setCytobands(cytobands: import("@jbrowse/core/util").Feature[]): void;
-            setLoadingP(p?: Promise<void> | undefined): void;
-            load(): Promise<void>;
-            loadPre(): Promise<void>;
-        } & {
-            getAdapterMapEntry(adapterConf: {
-                [x: string]: unknown;
-            }, options: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<import("@jbrowse/core/assemblyManager/assembly").RefNameMap>;
-            getRefNameMapForAdapter(adapterConf: {
-                [x: string]: unknown;
-            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
-                [x: string]: string | undefined;
-            }>;
-            getReverseRefNameMapForAdapter(adapterConf: {
-                [x: string]: unknown;
-            }, opts: import("@jbrowse/core/data_adapters/BaseAdapter").BaseOptions): Promise<{
-                [x: string]: string | undefined;
-            }>;
-        }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>): void;
+        removeAssembly(asm: import("@jbrowse/core/assemblyManager/assembly").Assembly): void;
         addAssembly(configuration: any): void;
         replaceAssembly(idx: number, configuration: any): void;
     }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>, [undefined]>;

package/dist/RootModel/BaseRootModel.js

@@ -3,7 +3,8 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
     return (mod && mod.__esModule) ? mod : { "default": mod };
 };
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.isRootModel = exports.BaseRootModelFactory = void 0;
+exports.BaseRootModelFactory = BaseRootModelFactory;
+exports.isRootModel = isRootModel;
 const assemblyManager_1 = __importDefault(require("@jbrowse/core/assemblyManager"));
 const RpcManager_1 = __importDefault(require("@jbrowse/core/rpc/RpcManager"));
 const mobx_state_tree_1 = require("mobx-state-tree");
@@ -83,7 +84,6 @@ function BaseRootModelFactory({ pluginManager, jbrowseModelType, sessionModelTyp
         },
     }));
 }
-exports.BaseRootModelFactory = BaseRootModelFactory;
 /** Type guard for checking if something is a JB root model */
 function isRootModel(thing) {
     return ((0, mobx_state_tree_1.isStateTreeNode)(thing) &&
@@ -91,4 +91,3 @@ function isRootModel(thing) {
         'jbrowse' in thing &&
         'assemblyManager' in thing);
 }
-exports.isRootModel = isRootModel;

package/dist/RootModel/FormatAbout.js

@@ -1,6 +1,6 @@
 "use strict";
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.FormatAboutConfigSchemaFactory = void 0;
+exports.FormatAboutConfigSchemaFactory = FormatAboutConfigSchemaFactory;
 const configuration_1 = require("@jbrowse/core/configuration");
 /**
  * #config FormatAbout
@@ -26,4 +26,3 @@ function FormatAboutConfigSchemaFactory() {
         },
     });
 }
-exports.FormatAboutConfigSchemaFactory = FormatAboutConfigSchemaFactory;

package/dist/RootModel/FormatDetails.js

@@ -1,6 +1,6 @@
 "use strict";
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.FormatDetailsConfigSchemaFactory = void 0;
+exports.FormatDetailsConfigSchemaFactory = FormatDetailsConfigSchemaFactory;
 const configuration_1 = require("@jbrowse/core/configuration");
 /**
  * #config FormatDetails
@@ -45,4 +45,3 @@ function FormatDetailsConfigSchemaFactory() {
         },
     });
 }
-exports.FormatDetailsConfigSchemaFactory = FormatDetailsConfigSchemaFactory;

package/dist/RootModel/HierarchicalConfig.js

@@ -1,6 +1,6 @@
 "use strict";
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.HierarchicalConfigSchemaFactory = void 0;
+exports.HierarchicalConfigSchemaFactory = HierarchicalConfigSchemaFactory;
 const configuration_1 = require("@jbrowse/core/configuration");
 /**
  * #config HierarchicalConfigSchema
@@ -49,4 +49,3 @@ function HierarchicalConfigSchemaFactory() {
         }),
     });
 }
-exports.HierarchicalConfigSchemaFactory = HierarchicalConfigSchemaFactory;

package/dist/RootModel/InternetAccounts.js

@@ -1,6 +1,6 @@
 "use strict";
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.InternetAccountsRootModelMixin = void 0;
+exports.InternetAccountsRootModelMixin = InternetAccountsRootModelMixin;
 const mobx_1 = require("mobx");
 const mobx_state_tree_1 = require("mobx-state-tree");
 /**
@@ -96,4 +96,3 @@ function InternetAccountsRootModelMixin(pluginManager) {
         },
     }));
 }
-exports.InternetAccountsRootModelMixin = InternetAccountsRootModelMixin;

package/dist/Session/BaseSession.d.ts

@@ -60,14 +60,20 @@ export declare function BaseSessionModel<ROOT_MODEL_TYPE extends BaseRootModelTy
     readonly assemblies: ({
         [x: string]: any;
     } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
-        setSubschema(slotName: string, data: unknown): any;
+        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<AnyConfigurationSchemaType>);
+        } & import("mobx-state-tree").IStateTreeNode<AnyConfigurationSchemaType>);
     } & import("mobx-state-tree").IStateTreeNode<import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
         aliases: {
             type: string;
             defaultValue: never[];
             description: string;
         };
-        sequence: AnyConfigurationSchemaType;
+        sequence: import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
         refNameColors: {
             type: string;
             defaultValue: never[];
@@ -77,12 +83,8 @@ export declare function BaseSessionModel<ROOT_MODEL_TYPE extends BaseRootModelTy
             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; /**
-             * #getter
-             */
-        }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>; /**
-         * #getter
-         */
+            adapter: import("mobx-state-tree").IAnyModelType;
+        }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, undefined>>;
         displayName: {
             type: string;
             defaultValue: string;

package/dist/Session/BaseSession.js

@@ -1,6 +1,8 @@
 "use strict";
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.isSession = exports.isBaseSession = exports.BaseSessionModel = void 0;
+exports.BaseSessionModel = BaseSessionModel;
+exports.isBaseSession = isBaseSession;
+exports.isSession = isSession;
 const mobx_state_tree_1 = require("mobx-state-tree");
 const mst_1 = require("@jbrowse/core/util/types/mst");
 /**
@@ -113,14 +115,11 @@ function BaseSessionModel(_pluginManager) {
         },
     }));
 }
-exports.BaseSessionModel = BaseSessionModel;
 /** Type guard for BaseSession */
 function isBaseSession(thing) {
     return 'id' in thing && 'name' in thing && 'root' in thing;
 }
-exports.isBaseSession = isBaseSession;
 /** Type guard for whether a thing is JBrowse session */
 function isSession(thing) {
     return (0, mobx_state_tree_1.isStateTreeNode)(thing) && isBaseSession(thing);
 }
-exports.isSession = isSession;

package/dist/Session/Connections.d.ts

@@ -18,36 +18,18 @@ export declare function ConnectionManagementSessionMixin(pluginManager: PluginMa
                 description: string;
             };
             assemblyNames: {
-                type: string; /**
-                 * #property
-                 */
+                type: string;
                 defaultValue: never[];
                 description: string;
             };
         }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "connectionId">>;
     }, {
-        connect(_arg: {
-            [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>): void;
+        connect(_arg: AnyConfigurationModel): void;
     } & {
         afterAttach(): void;
-        addTrackConf(trackConf: {
-            [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>): any;
-        addTrackConfs(trackConfs: ({
-            [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>)[]): any[];
-        setTrackConfs(trackConfs: ({
-            [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>)[]): 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>>;
+        addTrackConf(trackConf: AnyConfigurationModel): any;
+        addTrackConfs(trackConfs: AnyConfigurationModel[]): any[];
+        setTrackConfs(trackConfs: AnyConfigurationModel[]): 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>>;
         clear(): void;
     }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
 }, {
@@ -57,7 +39,13 @@ export declare function ConnectionManagementSessionMixin(pluginManager: PluginMa
     readonly connections: ({
         [x: string]: any;
     } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
-        setSubschema(slotName: string, data: unknown): any;
+        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;
@@ -80,7 +68,13 @@ export declare function ConnectionManagementSessionMixin(pluginManager: PluginMa
         configuration: {
             [x: string]: any;
         } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
-            setSubschema(slotName: string, data: unknown): any;
+            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;
@@ -88,36 +82,18 @@ export declare function ConnectionManagementSessionMixin(pluginManager: PluginMa
                 description: string;
             };
             assemblyNames: {
-                type: string; /**
-                 * #property
-                 */
+                type: string;
                 defaultValue: never[];
                 description: string;
             };
         }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "connectionId">>>;
     } & import("mobx-state-tree/dist/internal").NonEmptyObject & {
-        connect(_arg: {
-            [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>): void;
+        connect(_arg: AnyConfigurationModel): void;
     } & {
         afterAttach(): void;
-        addTrackConf(trackConf: {
-            [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>): any;
-        addTrackConfs(trackConfs: ({
-            [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>)[]): any[];
-        setTrackConfs(trackConfs: ({
-            [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>)[]): 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>>;
+        addTrackConf(trackConf: AnyConfigurationModel): any;
+        addTrackConfs(trackConfs: AnyConfigurationModel[]): any[];
+        setTrackConfs(trackConfs: AnyConfigurationModel[]): 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>>;
         clear(): void;
     } & import("mobx-state-tree").IStateTreeNode<import("mobx-state-tree").IModelType<{
         name: import("mobx-state-tree").ISimpleType<string>;
@@ -129,36 +105,18 @@ export declare function ConnectionManagementSessionMixin(pluginManager: PluginMa
                 description: string;
             };
             assemblyNames: {
-                type: string; /**
-                 * #property
-                 */
+                type: string;
                 defaultValue: never[];
                 description: string;
             };
         }, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "connectionId">>;
     }, {
-        connect(_arg: {
-            [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>): void;
+        connect(_arg: AnyConfigurationModel): void;
     } & {
         afterAttach(): void;
-        addTrackConf(trackConf: {
-            [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>): any;
-        addTrackConfs(trackConfs: ({
-            [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>)[]): any[];
-        setTrackConfs(trackConfs: ({
-            [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>)[]): 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>>;
+        addTrackConf(trackConf: AnyConfigurationModel): any;
+        addTrackConfs(trackConfs: AnyConfigurationModel[]): any[];
+        setTrackConfs(trackConfs: AnyConfigurationModel[]): 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>>;
         clear(): void;
     }, import("mobx-state-tree")._NotCustomized, import("mobx-state-tree")._NotCustomized>>;
     /**

package/dist/Session/Connections.js

@@ -1,6 +1,7 @@
 "use strict";
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.isSessionWithConnections = exports.ConnectionManagementSessionMixin = void 0;
+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");
@@ -105,9 +106,7 @@ function ConnectionManagementSessionMixin(pluginManager) {
         },
     }));
 }
-exports.ConnectionManagementSessionMixin = ConnectionManagementSessionMixin;
 /** Type guard for SessionWithConnections */
 function isSessionWithConnections(session) {
     return (0, BaseSession_1.isBaseSession)(session) && 'connectionInstances' in session;
 }
-exports.isSessionWithConnections = isSessionWithConnections;

package/dist/Session/DialogQueue.js

@@ -1,7 +1,8 @@
 "use strict";
 /** MST mixin for managing a queue of dialogs at the level of the session */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.isSessionWithDialogs = exports.DialogQueueSessionMixin = void 0;
+exports.DialogQueueSessionMixin = DialogQueueSessionMixin;
+exports.isSessionWithDialogs = isSessionWithDialogs;
 const mobx_state_tree_1 = require("mobx-state-tree");
 const BaseSession_1 = require("./BaseSession");
 /**
@@ -47,9 +48,7 @@ function DialogQueueSessionMixin(_pluginManager) {
         },
     }));
 }
-exports.DialogQueueSessionMixin = DialogQueueSessionMixin;
 /** Type guard for SessionWithDialogs */
 function isSessionWithDialogs(session) {
     return (0, BaseSession_1.isBaseSession)(session) && 'queueOfDialogs' in session;
 }
-exports.isSessionWithDialogs = isSessionWithDialogs;

package/dist/Session/DrawerWidgets.js

@@ -1,6 +1,7 @@
 "use strict";
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.isSessionWithDrawerWidgets = exports.DrawerWidgetSessionMixin = void 0;
+exports.DrawerWidgetSessionMixin = DrawerWidgetSessionMixin;
+exports.isSessionWithDrawerWidgets = isSessionWithDrawerWidgets;
 const mobx_state_tree_1 = require("mobx-state-tree");
 const util_1 = require("@jbrowse/core/util");
 const mobx_1 = require("mobx");
@@ -157,11 +158,9 @@ function DrawerWidgetSessionMixin(pluginManager) {
         },
     }));
 }
-exports.DrawerWidgetSessionMixin = DrawerWidgetSessionMixin;
 /** Type guard for SessionWithDrawerWidgets */
 function isSessionWithDrawerWidgets(session) {
     return ((0, BaseSession_1.isBaseSession)(session) &&
         'widgets' in session &&
         'drawerPosition' in session);
 }
-exports.isSessionWithDrawerWidgets = isSessionWithDrawerWidgets;