molstar 4.2.0 → 4.4.0

package/lib/commonjs/mol-model-props/integrative/cross-link-restraint/representation.d.ts

@@ -30,6 +30,7 @@ export declare const CrossLinkRestraintCylinderParams: {
     flipSided: PD.BooleanParam;
     flatShaded: PD.BooleanParam;
     ignoreLight: PD.BooleanParam;
+    celShaded: PD.BooleanParam;
     xrayShaded: PD.Select<boolean | "inverted">;
     transparentBackfaces: PD.Select<"on" | "off" | "opaque">;
     bumpFrequency: PD.Numeric;
@@ -79,6 +80,7 @@ export declare const CrossLinkRestraintParams: {
     flipSided: PD.BooleanParam;
     flatShaded: PD.BooleanParam;
     ignoreLight: PD.BooleanParam;
+    celShaded: PD.BooleanParam;
     xrayShaded: PD.Select<boolean | "inverted">;
     transparentBackfaces: PD.Select<"on" | "off" | "opaque">;
     bumpFrequency: PD.Numeric;
@@ -127,6 +129,7 @@ export declare function getCrossLinkRestraintParams(ctx: ThemeRegistryContext, s
     flipSided: PD.BooleanParam;
     flatShaded: PD.BooleanParam;
     ignoreLight: PD.BooleanParam;
+    celShaded: PD.BooleanParam;
     xrayShaded: PD.Select<boolean | "inverted">;
     transparentBackfaces: PD.Select<"on" | "off" | "opaque">;
     bumpFrequency: PD.Numeric;
@@ -176,6 +179,7 @@ export declare const CrossLinkRestraintRepresentationProvider: StructureRepresen
     flipSided: PD.BooleanParam;
     flatShaded: PD.BooleanParam;
     ignoreLight: PD.BooleanParam;
+    celShaded: PD.BooleanParam;
     xrayShaded: PD.Select<boolean | "inverted">;
     transparentBackfaces: PD.Select<"on" | "off" | "opaque">;
     bumpFrequency: PD.Numeric;

package/lib/commonjs/mol-model-props/integrative/cross-link-restraint/representation.js

@@ -5,7 +5,10 @@
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
  */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.CrossLinkRestraintRepresentationProvider = exports.CrossLinkRestraintRepresentation = exports.getCrossLinkRestraintParams = exports.CrossLinkRestraintParams = exports.CrossLinkRestraintVisual = exports.CrossLinkRestraintCylinderParams = void 0;
+exports.CrossLinkRestraintRepresentationProvider = exports.CrossLinkRestraintParams = exports.CrossLinkRestraintCylinderParams = void 0;
+exports.CrossLinkRestraintVisual = CrossLinkRestraintVisual;
+exports.getCrossLinkRestraintParams = getCrossLinkRestraintParams;
+exports.CrossLinkRestraintRepresentation = CrossLinkRestraintRepresentation;
 const representation_1 = require("../../../mol-repr/representation");
 const mesh_1 = require("../../../mol-geo/geometry/mesh/mesh");
 const location_iterator_1 = require("../../../mol-geo/util/location-iterator");
@@ -68,7 +71,6 @@ function CrossLinkRestraintVisual(materialId) {
         }
     }, materialId);
 }
-exports.CrossLinkRestraintVisual = CrossLinkRestraintVisual;
 function createCrossLinkRestraintIterator(structure) {
     const crossLinkRestraints = property_1.CrossLinkRestraintProvider.get(structure).value;
     const { pairs } = crossLinkRestraints;
@@ -117,11 +119,9 @@ exports.CrossLinkRestraintParams = {
 function getCrossLinkRestraintParams(ctx, structure) {
     return param_definition_1.ParamDefinition.clone(exports.CrossLinkRestraintParams);
 }
-exports.getCrossLinkRestraintParams = getCrossLinkRestraintParams;
 function CrossLinkRestraintRepresentation(ctx, getParams) {
     return representation_1.Representation.createMulti('CrossLinkRestraint', ctx, getParams, representation_2.StructureRepresentationStateBuilder, CrossLinkRestraintVisuals);
 }
-exports.CrossLinkRestraintRepresentation = CrossLinkRestraintRepresentation;
 exports.CrossLinkRestraintRepresentationProvider = (0, representation_2.StructureRepresentationProvider)({
     name: property_1.CrossLinkRestraint.Tag.CrossLinkRestraint,
     label: 'Cross Link Restraint',

package/lib/commonjs/mol-model-props/sequence/themes/sifts-mapping.d.ts

@@ -18,7 +18,7 @@ export declare const SIFTSMappingColorThemeParams: {
         sampleCountFactor: number;
     }>, "generate"> | PD.NamedParams<PD.Normalize<{
         list: {
-            kind: "set" | "interpolate";
+            kind: "interpolate" | "set";
             colors: import("../../../mol-util/color/color").ColorListEntry[];
         };
     }>, "colors">>;
@@ -36,7 +36,7 @@ export declare function getSIFTSMappingColorThemeParams(ctx: ThemeDataContext):
         sampleCountFactor: number;
     }>, "generate"> | PD.NamedParams<PD.Normalize<{
         list: {
-            kind: "set" | "interpolate";
+            kind: "interpolate" | "set";
             colors: import("../../../mol-util/color/color").ColorListEntry[];
         };
     }>, "colors">>;

package/lib/commonjs/mol-model-props/sequence/themes/sifts-mapping.js

@@ -5,7 +5,9 @@
  * @author David Sehnal <david.sehnal@gmail.com>
  */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.SIFTSMappingColorThemeProvider = exports.SIFTSMappingColorTheme = exports.getSIFTSMappingColorThemeParams = exports.SIFTSMappingColorThemeParams = void 0;
+exports.SIFTSMappingColorThemeProvider = exports.SIFTSMappingColorThemeParams = void 0;
+exports.getSIFTSMappingColorThemeParams = getSIFTSMappingColorThemeParams;
+exports.SIFTSMappingColorTheme = SIFTSMappingColorTheme;
 const structure_1 = require("../../../mol-model/structure");
 const color_1 = require("../../../mol-theme/color");
 const color_2 = require("../../../mol-util/color");
@@ -22,7 +24,6 @@ exports.SIFTSMappingColorThemeParams = {
 function getSIFTSMappingColorThemeParams(ctx) {
     return exports.SIFTSMappingColorThemeParams; // TODO return copy
 }
-exports.getSIFTSMappingColorThemeParams = getSIFTSMappingColorThemeParams;
 function SIFTSMappingColorTheme(ctx, props) {
     let color;
     if (ctx.structure) {
@@ -73,7 +74,6 @@ function SIFTSMappingColorTheme(ctx, props) {
         description: Description,
     };
 }
-exports.SIFTSMappingColorTheme = SIFTSMappingColorTheme;
 exports.SIFTSMappingColorThemeProvider = {
     name: 'sifts-mapping',
     label: 'SIFTS Mapping',

package/lib/commonjs/mol-plugin/animation-loop.d.ts

@@ -15,6 +15,7 @@ export declare class PluginAnimationLoop {
         isSynchronous?: boolean;
         manualDraw?: boolean;
         animation?: PluginAnimationManager.AnimationInfo;
+        updateControls?: boolean;
     }): Promise<void>;
     private frame;
     resetTime(t?: number): void;

package/lib/commonjs/mol-plugin/behavior/behavior.d.ts

@@ -22,48 +22,48 @@ declare namespace PluginBehavior {
     const Root_base: {
         new (data: {}, props?: {
             label: string;
-            description?: string | undefined;
+            description?: string;
         } | undefined): {
             id: import("../../mol-util").UUID;
             type: PluginStateObject.TypeInfo;
             label: string;
-            description?: string | undefined;
+            description?: string;
             data: {};
         };
         type: PluginStateObject.TypeInfo;
-        is(obj?: import("../../mol-state").StateObject<any, import("../../mol-state").StateObject.Type<any>> | undefined): obj is import("../../mol-state").StateObject<{}, PluginStateObject.TypeInfo>;
+        is(obj?: import("../../mol-state").StateObject): obj is import("../../mol-state").StateObject<{}, PluginStateObject.TypeInfo>;
     };
     export class Root extends Root_base {
     }
     const Category_base: {
         new (data: {}, props?: {
             label: string;
-            description?: string | undefined;
+            description?: string;
         } | undefined): {
             id: import("../../mol-util").UUID;
             type: PluginStateObject.TypeInfo;
             label: string;
-            description?: string | undefined;
+            description?: string;
             data: {};
         };
         type: PluginStateObject.TypeInfo;
-        is(obj?: import("../../mol-state").StateObject<any, import("../../mol-state").StateObject.Type<any>> | undefined): obj is import("../../mol-state").StateObject<{}, PluginStateObject.TypeInfo>;
+        is(obj?: import("../../mol-state").StateObject): obj is import("../../mol-state").StateObject<{}, PluginStateObject.TypeInfo>;
     };
     export class Category extends Category_base {
     }
     const Behavior_base: {
         new (data: PluginBehavior<unknown>, props?: {
             label: string;
-            description?: string | undefined;
+            description?: string;
         } | undefined): {
             id: import("../../mol-util").UUID;
             type: PluginStateObject.TypeInfo;
             label: string;
-            description?: string | undefined;
+            description?: string;
             data: PluginBehavior<unknown>;
         };
         type: PluginStateObject.TypeInfo;
-        is(obj?: import("../../mol-state").StateObject<any, import("../../mol-state").StateObject.Type<any>> | undefined): obj is import("../../mol-state").StateObject<PluginBehavior<unknown>, PluginStateObject.TypeInfo>;
+        is(obj?: import("../../mol-state").StateObject): obj is import("../../mol-state").StateObject<PluginBehavior<unknown>, PluginStateObject.TypeInfo>;
     };
     export class Behavior extends Behavior_base {
     }

package/lib/commonjs/mol-plugin/behavior/dynamic/volume-streaming/behavior.d.ts

@@ -17,16 +17,16 @@ import { PluginContext } from '../../../context';
 declare const VolumeStreaming_base: {
     new (data: VolumeStreaming.Behavior, props?: {
         label: string;
-        description?: string | undefined;
+        description?: string;
     } | undefined): {
         id: import("../../../../mol-util").UUID;
         type: PluginStateObject.TypeInfo;
         label: string;
-        description?: string | undefined;
+        description?: string;
         data: VolumeStreaming.Behavior;
     };
     type: PluginStateObject.TypeInfo;
-    is(obj?: import("../../../../mol-state").StateObject<any, import("../../../../mol-state").StateObject.Type<any>> | undefined): obj is import("../../../../mol-state").StateObject<VolumeStreaming.Behavior, PluginStateObject.TypeInfo>;
+    is(obj?: import("../../../../mol-state").StateObject): obj is import("../../../../mol-state").StateObject<VolumeStreaming.Behavior, PluginStateObject.TypeInfo>;
 };
 export declare class VolumeStreaming extends VolumeStreaming_base {
 }
@@ -55,14 +55,14 @@ export declare namespace VolumeStreaming {
                 topRight: Vec3;
             }>, "box"> | PD.NamedParams<PD.Normalize<{
                 radius: number;
+                dynamicDetailLevel: number;
                 bottomLeft: Vec3;
                 topRight: Vec3;
-            }>, "selection-box"> | PD.NamedParams<PD.Normalize<{
+            }>, "camera-target"> | PD.NamedParams<PD.Normalize<{
                 radius: number;
-                dynamicDetailLevel: number;
                 bottomLeft: Vec3;
                 topRight: Vec3;
-            }>, "camera-target">>;
+            }>, "selection-box">>;
             detailLevel: PD.Select<number>;
             channels: PD.Group<PD.Normalize<{
                 em: PD.Normalize<ChannelParams>;
@@ -92,14 +92,14 @@ export declare namespace VolumeStreaming {
             topRight: Vec3;
         }>, "box"> | PD.NamedParams<PD.Normalize<{
             radius: number;
+            dynamicDetailLevel: number;
             bottomLeft: Vec3;
             topRight: Vec3;
-        }>, "selection-box"> | PD.NamedParams<PD.Normalize<{
+        }>, "camera-target"> | PD.NamedParams<PD.Normalize<{
             radius: number;
-            dynamicDetailLevel: number;
             bottomLeft: Vec3;
             topRight: Vec3;
-        }>, "camera-target">>;
+        }>, "selection-box">>;
         detailLevel: PD.Select<number>;
         channels: PD.Group<PD.Normalize<{
             em: PD.Normalize<ChannelParams>;

package/lib/commonjs/mol-plugin/behavior/dynamic/volume-streaming/model.d.ts

@@ -10,16 +10,16 @@ import { Structure } from '../../../../mol-model/structure';
 declare const VolumeServerInfo_base: {
     new (data: VolumeServerInfo.Data, props?: {
         label: string;
-        description?: string | undefined;
+        description?: string;
     } | undefined): {
         id: import("../../../../mol-util").UUID;
         type: PluginStateObject.TypeInfo;
         label: string;
-        description?: string | undefined;
+        description?: string;
         data: VolumeServerInfo.Data;
     };
     type: PluginStateObject.TypeInfo;
-    is(obj?: import("../../../../mol-state").StateObject<any, import("../../../../mol-state").StateObject.Type<any>> | undefined): obj is import("../../../../mol-state").StateObject<VolumeServerInfo.Data, PluginStateObject.TypeInfo>;
+    is(obj?: import("../../../../mol-state").StateObject): obj is import("../../../../mol-state").StateObject<VolumeServerInfo.Data, PluginStateObject.TypeInfo>;
 };
 export declare class VolumeServerInfo extends VolumeServerInfo_base {
 }

package/lib/commonjs/mol-plugin/behavior/dynamic/volume-streaming/transformers.d.ts

@@ -50,14 +50,14 @@ declare const CreateVolumeStreamingBehavior: StateTransformer<VolumeServerInfo,
             topRight: any;
         }>, "box"> | PD.NamedParams<PD.Normalize<{
             radius: any;
+            dynamicDetailLevel: any;
             bottomLeft: any;
             topRight: any;
-        }>, "selection-box"> | PD.NamedParams<PD.Normalize<{
+        }>, "camera-target"> | PD.NamedParams<PD.Normalize<{
             radius: any;
-            dynamicDetailLevel: any;
             bottomLeft: any;
             topRight: any;
-        }>, "camera-target">>;
+        }>, "selection-box">>;
         detailLevel: PD.Select<number>;
         channels: PD.Group<PD.Normalize<{
             em: any;

package/lib/commonjs/mol-plugin/behavior/dynamic/volume-streaming/util.js

@@ -6,7 +6,14 @@
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
  */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.getEmdbIds = exports.getContourLevelPdbe = exports.getContourLevelEmdb = exports.getContourLevel = exports.getIds = exports.getXrayIds = exports.getEmIds = exports.getStreamingMethod = void 0;
+exports.getStreamingMethod = getStreamingMethod;
+exports.getEmIds = getEmIds;
+exports.getXrayIds = getXrayIds;
+exports.getIds = getIds;
+exports.getContourLevel = getContourLevel;
+exports.getContourLevelEmdb = getContourLevelEmdb;
+exports.getContourLevelPdbe = getContourLevelPdbe;
+exports.getEmdbIds = getEmdbIds;
 const structure_1 = require("../../../../mol-model/structure");
 const mmcif_1 = require("../../../../mol-model-formats/structure/mmcif");
 const config_1 = require("../../../config");
@@ -29,7 +36,6 @@ function getStreamingMethod(s, defaultKind = 'x-ray') {
         return 'x-ray';
     return defaultKind;
 }
-exports.getStreamingMethod = getStreamingMethod;
 /** Returns EMD ID when available, otherwise falls back to PDB ID */
 function getEmIds(model) {
     const ids = [];
@@ -45,11 +51,9 @@ function getEmIds(model) {
     }
     return ids;
 }
-exports.getEmIds = getEmIds;
 function getXrayIds(model) {
     return [model.entryId];
 }
-exports.getXrayIds = getXrayIds;
 function getIds(method, s) {
     if (!s || !s.models.length)
         return [];
@@ -59,14 +63,12 @@ function getIds(method, s) {
         case 'x-ray': return getXrayIds(model);
     }
 }
-exports.getIds = getIds;
 async function getContourLevel(provider, plugin, taskCtx, emdbId) {
     switch (provider) {
         case 'emdb': return getContourLevelEmdb(plugin, taskCtx, emdbId);
         case 'pdbe': return getContourLevelPdbe(plugin, taskCtx, emdbId);
     }
 }
-exports.getContourLevel = getContourLevel;
 async function getContourLevelEmdb(plugin, taskCtx, emdbId) {
     const emdbHeaderServer = plugin.config.get(config_1.PluginConfig.VolumeStreaming.EmdbHeaderServer);
     const header = await plugin.fetch({ url: `${emdbHeaderServer}/${emdbId.toUpperCase()}/header/${emdbId.toLowerCase()}.xml`, type: 'xml' }).runInContext(taskCtx);
@@ -82,7 +84,6 @@ async function getContourLevelEmdb(plugin, taskCtx, emdbId) {
     const contourLevel = parseFloat(primaryContour.getElementsByTagName('level')[0].textContent);
     return contourLevel;
 }
-exports.getContourLevelEmdb = getContourLevelEmdb;
 async function getContourLevelPdbe(plugin, taskCtx, emdbId) {
     var _a, _b, _c, _d;
     // TODO: parametrize URL in plugin settings?
@@ -95,7 +96,6 @@ async function getContourLevelPdbe(plugin, taskCtx, emdbId) {
     }
     return (_d = (_c = contours.find((c) => c.primary)) === null || _c === void 0 ? void 0 : _c.level) !== null && _d !== void 0 ? _d : contours[0].level;
 }
-exports.getContourLevelPdbe = getContourLevelPdbe;
 async function getContourLevelPdbeLegacy(plugin, taskCtx, emdbId) {
     var _a, _b, _c;
     // TODO: parametrize URL in plugin settings?
@@ -126,4 +126,3 @@ async function getEmdbIds(plugin, taskCtx, pdbId) {
     }
     return emdbIds;
 }
-exports.getEmdbIds = getEmdbIds;

package/lib/commonjs/mol-plugin/behavior/static/camera.js

@@ -6,7 +6,12 @@
  * @author Adam Midlik <midlik@gmail.com>
  */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.ResetAxes = exports.OrientAxes = exports.Focus = exports.SetSnapshot = exports.Reset = exports.registerDefault = void 0;
+exports.registerDefault = registerDefault;
+exports.Reset = Reset;
+exports.SetSnapshot = SetSnapshot;
+exports.Focus = Focus;
+exports.OrientAxes = OrientAxes;
+exports.ResetAxes = ResetAxes;
 const commands_1 = require("../../commands");
 function registerDefault(ctx) {
     Reset(ctx);
@@ -15,35 +20,29 @@ function registerDefault(ctx) {
     OrientAxes(ctx);
     ResetAxes(ctx);
 }
-exports.registerDefault = registerDefault;
 function Reset(ctx) {
     commands_1.PluginCommands.Camera.Reset.subscribe(ctx, options => {
         ctx.managers.camera.reset(options === null || options === void 0 ? void 0 : options.snapshot, options === null || options === void 0 ? void 0 : options.durationMs);
     });
 }
-exports.Reset = Reset;
 function SetSnapshot(ctx) {
     commands_1.PluginCommands.Camera.SetSnapshot.subscribe(ctx, ({ snapshot, durationMs }) => {
         ctx.managers.camera.setSnapshot(snapshot, durationMs);
     });
 }
-exports.SetSnapshot = SetSnapshot;
 function Focus(ctx) {
     commands_1.PluginCommands.Camera.Focus.subscribe(ctx, ({ center, radius, durationMs }) => {
         ctx.managers.camera.focusSphere({ center, radius }, { durationMs });
         ctx.events.canvas3d.settingsUpdated.next(void 0);
     });
 }
-exports.Focus = Focus;
 function OrientAxes(ctx) {
     commands_1.PluginCommands.Camera.OrientAxes.subscribe(ctx, ({ structures, durationMs }) => {
         ctx.managers.camera.orientAxes(structures, durationMs);
     });
 }
-exports.OrientAxes = OrientAxes;
 function ResetAxes(ctx) {
     commands_1.PluginCommands.Camera.ResetAxes.subscribe(ctx, ({ durationMs }) => {
         ctx.managers.camera.resetAxes(durationMs);
     });
 }
-exports.ResetAxes = ResetAxes;

package/lib/commonjs/mol-plugin/behavior/static/misc.js

@@ -6,13 +6,13 @@
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
  */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.Canvas3DSetSettings = exports.registerDefault = void 0;
+exports.registerDefault = registerDefault;
+exports.Canvas3DSetSettings = Canvas3DSetSettings;
 const commands_1 = require("../../commands");
 const canvas3d_1 = require("../../../mol-canvas3d/canvas3d");
 function registerDefault(ctx) {
     Canvas3DSetSettings(ctx);
 }
-exports.registerDefault = registerDefault;
 function Canvas3DSetSettings(ctx) {
     commands_1.PluginCommands.Canvas3D.ResetSettings.subscribe(ctx, () => {
         var _a;
@@ -27,4 +27,3 @@ function Canvas3DSetSettings(ctx) {
         ctx.events.canvas3d.settingsUpdated.next(void 0);
     });
 }
-exports.Canvas3DSetSettings = Canvas3DSetSettings;

package/lib/commonjs/mol-plugin/behavior/static/representation.js

@@ -5,14 +5,16 @@
  * @author David Sehnal <david.sehnal@gmail.com>
  */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.UpdateRepresentationVisibility = exports.SyncStructureRepresentation3DState = exports.SyncRepresentationToCanvas = exports.registerDefault = void 0;
+exports.registerDefault = registerDefault;
+exports.SyncRepresentationToCanvas = SyncRepresentationToCanvas;
+exports.SyncStructureRepresentation3DState = SyncStructureRepresentation3DState;
+exports.UpdateRepresentationVisibility = UpdateRepresentationVisibility;
 const objects_1 = require("../../../mol-plugin-state/objects");
 function registerDefault(ctx) {
     SyncRepresentationToCanvas(ctx);
     SyncStructureRepresentation3DState(ctx); // should be AFTER SyncRepresentationToCanvas
     UpdateRepresentationVisibility(ctx);
 }
-exports.registerDefault = registerDefault;
 function SyncRepresentationToCanvas(ctx) {
     const events = ctx.state.data.events;
     events.object.created.subscribe(e => {
@@ -46,7 +48,6 @@ function SyncRepresentationToCanvas(ctx) {
         e.obj.data.repr.destroy();
     });
 }
-exports.SyncRepresentationToCanvas = SyncRepresentationToCanvas;
 function SyncStructureRepresentation3DState(ctx) {
     // TODO: figure out how to do transform composition here?
     const events = ctx.state.data.events;
@@ -75,7 +76,6 @@ function SyncStructureRepresentation3DState(ctx) {
         (_a = ctx.canvas3d) === null || _a === void 0 ? void 0 : _a.update(data.repr);
     });
 }
-exports.SyncStructureRepresentation3DState = SyncStructureRepresentation3DState;
 function UpdateRepresentationVisibility(ctx) {
     ctx.state.data.events.cell.stateUpdated.subscribe(e => {
         var _a;
@@ -87,7 +87,6 @@ function UpdateRepresentationVisibility(ctx) {
         }
     });
 }
-exports.UpdateRepresentationVisibility = UpdateRepresentationVisibility;
 function updateVisibility(cell, r) {
     if (r.state.visible === !!cell.state.isHidden) {
         r.setState({ visible: !cell.state.isHidden });

package/lib/commonjs/mol-plugin/behavior/static/state.js

@@ -6,7 +6,18 @@
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
  */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.Snapshots = exports.ClearHighlights = exports.Highlight = exports.setSubtreeVisibility = exports.ToggleVisibility = exports.ToggleExpanded = exports.RemoveObject = exports.ApplyAction = exports.Update = exports.SetCurrentObject = exports.SyncBehaviors = exports.registerDefault = void 0;
+exports.registerDefault = registerDefault;
+exports.SyncBehaviors = SyncBehaviors;
+exports.SetCurrentObject = SetCurrentObject;
+exports.Update = Update;
+exports.ApplyAction = ApplyAction;
+exports.RemoveObject = RemoveObject;
+exports.ToggleExpanded = ToggleExpanded;
+exports.ToggleVisibility = ToggleVisibility;
+exports.setSubtreeVisibility = setSubtreeVisibility;
+exports.Highlight = Highlight;
+exports.ClearHighlights = ClearHighlights;
+exports.Snapshots = Snapshots;
 const structure_1 = require("../../../mol-model/structure");
 const snapshots_1 = require("../../../mol-plugin-state/manager/snapshots");
 const objects_1 = require("../../../mol-plugin-state/objects");
@@ -28,7 +39,6 @@ function registerDefault(ctx) {
     ClearHighlights(ctx);
     Snapshots(ctx);
 }
-exports.registerDefault = registerDefault;
 function SyncBehaviors(ctx) {
     ctx.state.events.object.created.subscribe(o => {
         if (!objects_1.PluginStateObject.isBehavior(o.obj))
@@ -54,19 +64,15 @@ function SyncBehaviors(ctx) {
         }
     });
 }
-exports.SyncBehaviors = SyncBehaviors;
 function SetCurrentObject(ctx) {
     commands_1.PluginCommands.State.SetCurrentObject.subscribe(ctx, ({ state, ref }) => state.setCurrent(ref));
 }
-exports.SetCurrentObject = SetCurrentObject;
 function Update(ctx) {
     commands_1.PluginCommands.State.Update.subscribe(ctx, ({ state, tree, options }) => ctx.runTask(state.updateTree(tree, options)));
 }
-exports.Update = Update;
 function ApplyAction(ctx) {
     commands_1.PluginCommands.State.ApplyAction.subscribe(ctx, ({ state, action, ref }) => ctx.runTask(state.applyAction(action.action, action.params, ref)));
 }
-exports.ApplyAction = ApplyAction;
 function RemoveObject(ctx) {
     function remove(state, ref) {
         const tree = state.build().delete(ref);
@@ -94,19 +100,15 @@ function RemoveObject(ctx) {
         }
     });
 }
-exports.RemoveObject = RemoveObject;
 function ToggleExpanded(ctx) {
     commands_1.PluginCommands.State.ToggleExpanded.subscribe(ctx, ({ state, ref }) => state.updateCellState(ref, ({ isCollapsed }) => ({ isCollapsed: !isCollapsed })));
 }
-exports.ToggleExpanded = ToggleExpanded;
 function ToggleVisibility(ctx) {
     commands_1.PluginCommands.State.ToggleVisibility.subscribe(ctx, ({ state, ref }) => setSubtreeVisibility(state, ref, !state.cells.get(ref).state.isHidden));
 }
-exports.ToggleVisibility = ToggleVisibility;
 function setSubtreeVisibility(state, root, value) {
     mol_state_1.StateTree.doPreOrder(state.tree, state.transforms.get(root), { state, value }, setVisibilityVisitor);
 }
-exports.setSubtreeVisibility = setSubtreeVisibility;
 function setVisibilityVisitor(t, tree, ctx) {
     ctx.state.updateCellState(t.ref, { isHidden: ctx.value });
 }
@@ -139,13 +141,11 @@ function Highlight(ctx) {
         // TODO: select structures of subtree?
     });
 }
-exports.Highlight = Highlight;
 function ClearHighlights(ctx) {
     commands_1.PluginCommands.Interactivity.ClearHighlights.subscribe(ctx, () => {
         ctx.managers.interactivity.lociHighlights.clearHighlights();
     });
 }
-exports.ClearHighlights = ClearHighlights;
 function Snapshots(ctx) {
     ctx.config.set(config_1.PluginConfig.State.CurrentServer, ctx.config.get(config_1.PluginConfig.State.DefaultServer));
     commands_1.PluginCommands.State.Snapshots.Clear.subscribe(ctx, () => {
@@ -202,4 +202,3 @@ function Snapshots(ctx) {
         return ctx.managers.snapshot.open(new File([data], `state.${type}`));
     });
 }
-exports.Snapshots = Snapshots;

package/lib/commonjs/mol-plugin/command.js

@@ -5,7 +5,8 @@
  * @author David Sehnal <david.sehnal@gmail.com>
  */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.PluginCommandManager = exports.PluginCommand = void 0;
+exports.PluginCommandManager = void 0;
+exports.PluginCommand = PluginCommand;
 const mol_util_1 = require("../mol-util");
 function PluginCommand() {
     const ret = ((ctx, params) => ctx.commands.dispatch(ret, params || {}));
@@ -13,7 +14,6 @@ function PluginCommand() {
     ret.id = mol_util_1.UUID.create22();
     return ret;
 }
-exports.PluginCommand = PluginCommand;
 class PluginCommandManager {
     constructor() {
         this.subs = new Map();