molstar 3.3.0 → 3.5.0

package/lib/commonjs/mol-model-props/computed/secondary-structure.js

@@ -46,13 +46,13 @@ exports.SecondaryStructureProvider = custom_structure_property_1.CustomStructure
     defaultParams: exports.SecondaryStructureParams,
     getParams: getSecondaryStructureParams,
     isApplicable: function (data) { return true; },
-    obtain: function (ctx, data, props) { return (0, tslib_1.__awaiter)(void 0, void 0, void 0, function () {
+    obtain: function (ctx, data, props) { return tslib_1.__awaiter(void 0, void 0, void 0, function () {
         var p, _a;
         var _b, _c;
-        return (0, tslib_1.__generator)(this, function (_d) {
+        return tslib_1.__generator(this, function (_d) {
             switch (_d.label) {
                 case 0:
-                    p = (0, tslib_1.__assign)((0, tslib_1.__assign)({}, param_definition_1.ParamDefinition.getDefaultValues(exports.SecondaryStructureParams)), props);
+                    p = tslib_1.__assign(tslib_1.__assign({}, param_definition_1.ParamDefinition.getDefaultValues(exports.SecondaryStructureParams)), props);
                     _a = p.type.name;
                     switch (_a) {
                         case 'dssp': return [3 /*break*/, 1];
@@ -73,9 +73,9 @@ exports.SecondaryStructureProvider = custom_structure_property_1.CustomStructure
     }); }
 });
 function computeDssp(structure, props) {
-    return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
+    return tslib_1.__awaiter(this, void 0, void 0, function () {
         var map, i, il, u, secondaryStructure;
-        return (0, tslib_1.__generator)(this, function (_a) {
+        return tslib_1.__generator(this, function (_a) {
             switch (_a.label) {
                 case 0:
                     map = new Map();
@@ -99,9 +99,9 @@ function computeDssp(structure, props) {
     });
 }
 function computeModel(structure) {
-    return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
+    return tslib_1.__awaiter(this, void 0, void 0, function () {
         var map, i, il, u, secondaryStructure;
-        return (0, tslib_1.__generator)(this, function (_a) {
+        return tslib_1.__generator(this, function (_a) {
             map = new Map();
             for (i = 0, il = structure.unitSymmetryGroups.length; i < il; ++i) {
                 u = structure.unitSymmetryGroups[i].units[0];

package/lib/commonjs/mol-model-props/computed/valence-model.js

@@ -11,7 +11,7 @@ var param_definition_1 = require("../../mol-util/param-definition");
 var valence_model_1 = require("./chemistry/valence-model");
 var custom_structure_property_1 = require("../common/custom-structure-property");
 var custom_property_1 = require("../../mol-model/custom-property");
-exports.ValenceModelParams = (0, tslib_1.__assign)({}, valence_model_1.ValenceModelParams);
+exports.ValenceModelParams = tslib_1.__assign({}, valence_model_1.ValenceModelParams);
 exports.ValenceModelProvider = custom_structure_property_1.CustomStructureProperty.createProvider({
     label: 'Valence Model',
     descriptor: (0, custom_property_1.CustomPropertyDescriptor)({
@@ -22,13 +22,13 @@ exports.ValenceModelProvider = custom_structure_property_1.CustomStructureProper
     defaultParams: exports.ValenceModelParams,
     getParams: function (data) { return exports.ValenceModelParams; },
     isApplicable: function (data) { return true; },
-    obtain: function (ctx, data, props) { return (0, tslib_1.__awaiter)(void 0, void 0, void 0, function () {
+    obtain: function (ctx, data, props) { return tslib_1.__awaiter(void 0, void 0, void 0, function () {
         var p;
         var _a;
-        return (0, tslib_1.__generator)(this, function (_b) {
+        return tslib_1.__generator(this, function (_b) {
             switch (_b.label) {
                 case 0:
-                    p = (0, tslib_1.__assign)((0, tslib_1.__assign)({}, param_definition_1.ParamDefinition.getDefaultValues(exports.ValenceModelParams)), props);
+                    p = tslib_1.__assign(tslib_1.__assign({}, param_definition_1.ParamDefinition.getDefaultValues(exports.ValenceModelParams)), props);
                     _a = {};
                     return [4 /*yield*/, (0, valence_model_1.calcValenceModel)(ctx.runtime, data, p)];
                 case 1: return [2 /*return*/, (_a.value = _b.sent(), _a)];

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

@@ -27,8 +27,8 @@ exports.CrossLinkRestraintProvider = custom_structure_property_1.CustomStructure
     defaultParams: {},
     getParams: function (data) { return ({}); },
     isApplicable: function (data) { return data.models.some(function (m) { return !!format_1.ModelCrossLinkRestraint.Provider.get(m); }); },
-    obtain: function (ctx, data, props) { return (0, tslib_1.__awaiter)(void 0, void 0, void 0, function () {
-        return (0, tslib_1.__generator)(this, function (_a) {
+    obtain: function (ctx, data, props) { return tslib_1.__awaiter(void 0, void 0, void 0, function () {
+        return tslib_1.__generator(this, function (_a) {
             return [2 /*return*/, { value: extractCrossLinkRestraints(data) }];
         });
     }); }

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

@@ -18,6 +18,7 @@ var link_1 = require("../../../mol-repr/structure/visual/util/link");
 var complex_visual_1 = require("../../../mol-repr/structure/complex-visual");
 var representation_2 = require("../../../mol-repr/structure/representation");
 var property_1 = require("./property");
+var geometry_1 = require("../../../mol-math/geometry");
 function createCrossLinkRestraintCylinderMesh(ctx, structure, theme, props, mesh) {
     var crossLinks = property_1.CrossLinkRestraintProvider.get(structure).value;
     if (!crossLinks.count)
@@ -39,9 +40,17 @@ function createCrossLinkRestraintCylinderMesh(ctx, structure, theme, props, mesh
             return theme.size.size(location) * sizeFactor;
         },
     };
-    return (0, link_1.createLinkCylinderMesh)(ctx, builderProps, props, mesh);
+    var _a = (0, link_1.createLinkCylinderMesh)(ctx, builderProps, props, mesh), m = _a.mesh, boundingSphere = _a.boundingSphere;
+    if (boundingSphere) {
+        m.setBoundingSphere(boundingSphere);
+    }
+    else if (m.triangleCount > 0) {
+        var sphere = geometry_1.Sphere3D.expand((0, geometry_1.Sphere3D)(), structure.boundary.sphere, 1 * sizeFactor);
+        m.setBoundingSphere(sphere);
+    }
+    return m;
 }
-exports.CrossLinkRestraintCylinderParams = (0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)({}, complex_visual_1.ComplexMeshParams), link_1.LinkCylinderParams), { sizeFactor: param_definition_1.ParamDefinition.Numeric(0.5, { min: 0, max: 10, step: 0.1 }) });
+exports.CrossLinkRestraintCylinderParams = tslib_1.__assign(tslib_1.__assign(tslib_1.__assign({}, complex_visual_1.ComplexMeshParams), link_1.LinkCylinderParams), { sizeFactor: param_definition_1.ParamDefinition.Numeric(0.5, { min: 0, max: 10, step: 0.1 }) });
 function CrossLinkRestraintVisual(materialId) {
     return (0, complex_visual_1.ComplexMeshVisual)({
         defaultProps: param_definition_1.ParamDefinition.getDefaultValues(exports.CrossLinkRestraintCylinderParams),
@@ -100,7 +109,7 @@ function eachCrossLink(loci, structure, apply) {
 var CrossLinkRestraintVisuals = {
     'cross-link-restraint': function (ctx, getParams) { return (0, representation_2.ComplexRepresentation)('Cross-link restraint', ctx, getParams, CrossLinkRestraintVisual); },
 };
-exports.CrossLinkRestraintParams = (0, tslib_1.__assign)({}, exports.CrossLinkRestraintCylinderParams);
+exports.CrossLinkRestraintParams = tslib_1.__assign({}, exports.CrossLinkRestraintCylinderParams);
 function getCrossLinkRestraintParams(ctx, structure) {
     return param_definition_1.ParamDefinition.clone(exports.CrossLinkRestraintParams);
 }

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

@@ -22,8 +22,8 @@ var SIFTSMapping;
         defaultParams: {},
         getParams: function () { return ({}); },
         isApplicable: function (data) { return isAvailable(data); },
-        obtain: function (ctx, data) { return (0, tslib_1.__awaiter)(_this, void 0, void 0, function () {
-            return (0, tslib_1.__generator)(this, function (_a) {
+        obtain: function (ctx, data) { return tslib_1.__awaiter(_this, void 0, void 0, function () {
+            return tslib_1.__generator(this, function (_a) {
                 return [2 /*return*/, { value: fromCif(data) }];
             });
         }); }

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

@@ -16,7 +16,7 @@ var DefaultColor = (0, color_1.Color)(0xFAFAFA);
 var Description = 'Assigns a color based on SIFTS mapping.';
 // same colors for same accessions
 var globalAccessionMap = new Map();
-exports.SIFTSMappingColorThemeParams = (0, tslib_1.__assign)({}, (0, palette_1.getPaletteParams)({ type: 'colors', colorList: 'set-1' }));
+exports.SIFTSMappingColorThemeParams = tslib_1.__assign({}, (0, palette_1.getPaletteParams)({ type: 'colors', colorList: 'set-1' }));
 function getSIFTSMappingColorThemeParams(ctx) {
     return exports.SIFTSMappingColorThemeParams; // TODO return copy
 }
@@ -83,9 +83,9 @@ exports.SIFTSMappingColorThemeProvider = {
     defaultValues: param_definition_1.ParamDefinition.getDefaultValues(exports.SIFTSMappingColorThemeParams),
     isApplicable: function (ctx) { var _a; return !!((_a = ctx.structure) === null || _a === void 0 ? void 0 : _a.models.some(function (m) { return sifts_mapping_1.SIFTSMapping.Provider.isApplicable(m); })); },
     ensureCustomProperties: {
-        attach: function (ctx, data) { return (0, tslib_1.__awaiter)(void 0, void 0, void 0, function () {
+        attach: function (ctx, data) { return tslib_1.__awaiter(void 0, void 0, void 0, function () {
             var _i, _a, m;
-            return (0, tslib_1.__generator)(this, function (_b) {
+            return tslib_1.__generator(this, function (_b) {
                 switch (_b.label) {
                     case 0:
                         if (!data.structure)

package/lib/commonjs/mol-plugin/animation-loop.js

@@ -30,8 +30,8 @@ var PluginAnimationLoop = /** @class */ (function () {
     });
     PluginAnimationLoop.prototype.tick = function (t, options) {
         var _a;
-        return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
-            return (0, tslib_1.__generator)(this, function (_b) {
+        return tslib_1.__awaiter(this, void 0, void 0, function () {
+            return tslib_1.__generator(this, function (_b) {
                 switch (_b.label) {
                     case 0: return [4 /*yield*/, this.plugin.managers.animation.tick(t, options === null || options === void 0 ? void 0 : options.isSynchronous, options === null || options === void 0 ? void 0 : options.animation)];
                     case 1:

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

@@ -15,7 +15,7 @@ var mol_util_1 = require("../../mol-util");
 var PluginBehavior;
 (function (PluginBehavior) {
     var Root = /** @class */ (function (_super) {
-        (0, tslib_1.__extends)(Root, _super);
+        tslib_1.__extends(Root, _super);
         function Root() {
             return _super !== null && _super.apply(this, arguments) || this;
         }
@@ -23,7 +23,7 @@ var PluginBehavior;
     }(objects_1.PluginStateObject.Create({ name: 'Root', typeClass: 'Root' })));
     PluginBehavior.Root = Root;
     var Category = /** @class */ (function (_super) {
-        (0, tslib_1.__extends)(Category, _super);
+        tslib_1.__extends(Category, _super);
         function Category() {
             return _super !== null && _super.apply(this, arguments) || this;
         }
@@ -31,7 +31,7 @@ var PluginBehavior;
     }(objects_1.PluginStateObject.Create({ name: 'Category', typeClass: 'Object' })));
     PluginBehavior.Category = Category;
     var Behavior = /** @class */ (function (_super) {
-        (0, tslib_1.__extends)(Behavior, _super);
+        tslib_1.__extends(Behavior, _super);
         function Behavior() {
             return _super !== null && _super.apply(this, arguments) || this;
         }
@@ -79,9 +79,9 @@ var PluginBehavior;
             update: function (_a) {
                 var _this = this;
                 var b = _a.b, newParams = _a.newParams;
-                return mol_task_1.Task.create('Update Behavior', function () { return (0, tslib_1.__awaiter)(_this, void 0, void 0, function () {
+                return mol_task_1.Task.create('Update Behavior', function () { return tslib_1.__awaiter(_this, void 0, void 0, function () {
                     var updated;
-                    return (0, tslib_1.__generator)(this, function (_a) {
+                    return tslib_1.__generator(this, function (_a) {
                         switch (_a.label) {
                             case 0:
                                 if (!b.data.update)

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

@@ -40,7 +40,7 @@ exports.FocusLoci = behavior_1.PluginBehavior.create({
     name: 'camera-focus-loci',
     category: 'interaction',
     ctor: /** @class */ (function (_super) {
-        (0, tslib_1.__extends)(class_1, _super);
+        tslib_1.__extends(class_1, _super);
         function class_1() {
             return _super !== null && _super.apply(this, arguments) || this;
         }
@@ -72,7 +72,7 @@ exports.CameraAxisHelper = behavior_1.PluginBehavior.create({
     name: 'camera-axis-helper',
     category: 'interaction',
     ctor: /** @class */ (function (_super) {
-        (0, tslib_1.__extends)(class_2, _super);
+        tslib_1.__extends(class_2, _super);
         function class_2() {
             return _super !== null && _super.apply(this, arguments) || this;
         }

package/lib/commonjs/mol-plugin/behavior/dynamic/custom-props/computed/accessible-surface-area.js

@@ -21,7 +21,7 @@ exports.AccessibleSurfaceArea = behavior_1.PluginBehavior.create({
     category: 'custom-props',
     display: { name: 'Accessible Surface Area' },
     ctor: /** @class */ (function (_super) {
-        (0, tslib_1.__extends)(class_1, _super);
+        tslib_1.__extends(class_1, _super);
         function class_1() {
             var _this = _super !== null && _super.apply(this, arguments) || this;
             _this.provider = accessible_surface_area_1.AccessibleSurfaceAreaProvider;

package/lib/commonjs/mol-plugin/behavior/dynamic/custom-props/computed/interactions.js

@@ -23,7 +23,7 @@ exports.Interactions = behavior_1.PluginBehavior.create({
     category: 'custom-props',
     display: { name: 'Interactions' },
     ctor: /** @class */ (function (_super) {
-        (0, tslib_1.__extends)(class_1, _super);
+        tslib_1.__extends(class_1, _super);
         function class_1() {
             var _this = _super !== null && _super.apply(this, arguments) || this;
             _this.provider = interactions_1.InteractionsProvider;

package/lib/commonjs/mol-plugin/behavior/dynamic/custom-props/computed/secondary-structure.js

@@ -15,7 +15,7 @@ exports.SecondaryStructure = behavior_1.PluginBehavior.create({
     category: 'custom-props',
     display: { name: 'Secondary Structure' },
     ctor: /** @class */ (function (_super) {
-        (0, tslib_1.__extends)(class_1, _super);
+        tslib_1.__extends(class_1, _super);
         function class_1() {
             var _this = _super !== null && _super.apply(this, arguments) || this;
             _this.provider = secondary_structure_1.SecondaryStructureProvider;

package/lib/commonjs/mol-plugin/behavior/dynamic/custom-props/computed/valence-model.js

@@ -21,7 +21,7 @@ exports.ValenceModel = behavior_1.PluginBehavior.create({
     category: 'custom-props',
     display: { name: 'Valence Model' },
     ctor: /** @class */ (function (_super) {
-        (0, tslib_1.__extends)(class_1, _super);
+        tslib_1.__extends(class_1, _super);
         function class_1() {
             var _this = _super !== null && _super.apply(this, arguments) || this;
             _this.provider = valence_model_1.ValenceModelProvider;

package/lib/commonjs/mol-plugin/behavior/dynamic/custom-props/integrative/cross-link-restraint.js

@@ -17,7 +17,7 @@ exports.CrossLinkRestraint = behavior_1.PluginBehavior.create({
     category: 'custom-props',
     display: { name: 'Cross Link Restraint' },
     ctor: /** @class */ (function (_super) {
-        (0, tslib_1.__extends)(class_1, _super);
+        tslib_1.__extends(class_1, _super);
         function class_1() {
             var _this = _super !== null && _super.apply(this, arguments) || this;
             _this.provider = format_1.ModelCrossLinkRestraint.Provider;

package/lib/commonjs/mol-plugin/behavior/dynamic/custom-props/sequence/sifts-mapping.js

@@ -18,7 +18,7 @@ exports.SIFTSMapping = behavior_1.PluginBehavior.create({
     category: 'custom-props',
     display: { name: 'SIFTS Mapping' },
     ctor: /** @class */ (function (_super) {
-        (0, tslib_1.__extends)(class_1, _super);
+        tslib_1.__extends(class_1, _super);
         function class_1() {
             var _this = _super !== null && _super.apply(this, arguments) || this;
             _this.provider = sifts_mapping_1.SIFTSMapping.Provider;

package/lib/commonjs/mol-plugin/behavior/dynamic/custom-props/structure-info.js

@@ -16,7 +16,7 @@ exports.StructureInfo = behavior_1.PluginBehavior.create({
     category: 'custom-props',
     display: { name: 'Structure Info' },
     ctor: /** @class */ (function (_super) {
-        (0, tslib_1.__extends)(class_1, _super);
+        tslib_1.__extends(class_1, _super);
         function class_1() {
             return _super !== null && _super.apply(this, arguments) || this;
         }
@@ -83,7 +83,7 @@ exports.StructureInfo = behavior_1.PluginBehavior.create({
             }
             if (structure_1.Model.AsymIdOffset.get(model).value === undefined) {
                 var oldOffset = oldModel && structure_1.Model.AsymIdOffset.get(oldModel).value;
-                var value = oldOffset !== null && oldOffset !== void 0 ? oldOffset : (0, tslib_1.__assign)({}, this.asymIdOffset);
+                var value = oldOffset !== null && oldOffset !== void 0 ? oldOffset : tslib_1.__assign({}, this.asymIdOffset);
                 structure_1.Model.AsymIdOffset.set(model, { value: value });
             }
         };

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

@@ -38,7 +38,7 @@ exports.HighlightLoci = behavior_1.PluginBehavior.create({
     name: 'representation-highlight-loci',
     category: 'interaction',
     ctor: /** @class */ (function (_super) {
-        (0, tslib_1.__extends)(class_1, _super);
+        tslib_1.__extends(class_1, _super);
         function class_1() {
             var _this = _super !== null && _super.apply(this, arguments) || this;
             _this.lociMarkProvider = function (interactionLoci, action) {
@@ -108,7 +108,7 @@ exports.SelectLoci = behavior_1.PluginBehavior.create({
     name: 'representation-select-loci',
     category: 'interaction',
     ctor: /** @class */ (function (_super) {
-        (0, tslib_1.__extends)(class_2, _super);
+        tslib_1.__extends(class_2, _super);
         function class_2(ctx, params) {
             var _this = _super.call(this, ctx, params) || this;
             _this.lociMarkProvider = function (reprLoci, action) {
@@ -262,7 +262,7 @@ exports.FocusLoci = behavior_1.PluginBehavior.create({
     name: 'representation-focus-loci',
     category: 'interaction',
     ctor: /** @class */ (function (_super) {
-        (0, tslib_1.__extends)(class_4, _super);
+        tslib_1.__extends(class_4, _super);
         function class_4() {
             return _super !== null && _super.apply(this, arguments) || this;
         }

package/lib/commonjs/mol-plugin/behavior/dynamic/selection/structure-focus-representation.js

@@ -68,7 +68,7 @@ var StructureFocusRepresentationTags;
 })(StructureFocusRepresentationTags = exports.StructureFocusRepresentationTags || (exports.StructureFocusRepresentationTags = {}));
 var TagSet = new Set([StructureFocusRepresentationTags.TargetSel, StructureFocusRepresentationTags.TargetRepr, StructureFocusRepresentationTags.SurrSel, StructureFocusRepresentationTags.SurrRepr, StructureFocusRepresentationTags.SurrNciRepr]);
 var StructureFocusRepresentationBehavior = /** @class */ (function (_super) {
-    (0, tslib_1.__extends)(StructureFocusRepresentationBehavior, _super);
+    tslib_1.__extends(StructureFocusRepresentationBehavior, _super);
     function StructureFocusRepresentationBehavior() {
         var _this = _super !== null && _super.apply(this, arguments) || this;
         _this.currentSource = void 0;
@@ -80,9 +80,9 @@ var StructureFocusRepresentationBehavior = /** @class */ (function (_super) {
         configurable: true
     });
     StructureFocusRepresentationBehavior.prototype.getReprParams = function (reprParams) {
-        return (0, tslib_1.__assign)((0, tslib_1.__assign)({}, reprParams), { type: {
+        return tslib_1.__assign(tslib_1.__assign({}, reprParams), { type: {
                 name: reprParams.type.name,
-                params: (0, tslib_1.__assign)((0, tslib_1.__assign)({}, reprParams.type.params), { ignoreHydrogens: this.params.ignoreHydrogens, ignoreLight: this.params.ignoreLight, material: this.params.material, clip: this.params.clip })
+                params: tslib_1.__assign(tslib_1.__assign({}, reprParams.type.params), { ignoreHydrogens: this.params.ignoreHydrogens, ignoreLight: this.params.ignoreLight, material: this.params.material, clip: this.params.clip })
             } });
     };
     StructureFocusRepresentationBehavior.prototype.ensureShape = function (cell) {
@@ -131,20 +131,20 @@ var StructureFocusRepresentationBehavior = /** @class */ (function (_super) {
         var bundle = structure_1.StructureElement.Bundle.Empty;
         for (var _i = 0, foci_1 = foci; _i < foci_1.length; _i++) {
             var f = foci_1[_i];
-            update.to(f).update(transforms_1.StateTransforms.Model.StructureSelectionFromBundle, function (old) { return ((0, tslib_1.__assign)((0, tslib_1.__assign)({}, old), { bundle: bundle })); });
+            update.to(f).update(transforms_1.StateTransforms.Model.StructureSelectionFromBundle, function (old) { return (tslib_1.__assign(tslib_1.__assign({}, old), { bundle: bundle })); });
         }
         var expression = builder_1.MolScriptBuilder.struct.generator.empty();
         for (var _a = 0, surrs_1 = surrs; _a < surrs_1.length; _a++) {
             var s = surrs_1[_a];
-            update.to(s).update(transforms_1.StateTransforms.Model.StructureSelectionFromExpression, function (old) { return ((0, tslib_1.__assign)((0, tslib_1.__assign)({}, old), { expression: expression })); });
+            update.to(s).update(transforms_1.StateTransforms.Model.StructureSelectionFromExpression, function (old) { return (tslib_1.__assign(tslib_1.__assign({}, old), { expression: expression })); });
         }
         return commands_1.PluginCommands.State.Update(this.plugin, { state: state, tree: update, options: { doNotLogTiming: true, doNotUpdateCurrent: true } });
     };
     StructureFocusRepresentationBehavior.prototype.focus = function (sourceLoci) {
-        return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
+        return tslib_1.__awaiter(this, void 0, void 0, function () {
             var parent, loci, residueLoci, residueBundle, target, surroundings, _a, state, builder, refs;
             var _this = this;
-            return (0, tslib_1.__generator)(this, function (_b) {
+            return tslib_1.__generator(this, function (_b) {
                 switch (_b.label) {
                     case 0:
                         parent = this.plugin.helpers.substructureParent.get(sourceLoci.structure);
@@ -167,8 +167,8 @@ var StructureFocusRepresentationBehavior = /** @class */ (function (_super) {
                             });
                         }
                         _a = this.ensureShape(parent), state = _a.state, builder = _a.builder, refs = _a.refs;
-                        builder.to(refs[StructureFocusRepresentationTags.TargetSel]).update(transforms_1.StateTransforms.Model.StructureSelectionFromBundle, function (old) { return ((0, tslib_1.__assign)((0, tslib_1.__assign)({}, old), { bundle: residueBundle })); });
-                        builder.to(refs[StructureFocusRepresentationTags.SurrSel]).update(transforms_1.StateTransforms.Model.StructureSelectionFromExpression, function (old) { return ((0, tslib_1.__assign)((0, tslib_1.__assign)({}, old), { expression: surroundings, label: _this.surrLabel })); });
+                        builder.to(refs[StructureFocusRepresentationTags.TargetSel]).update(transforms_1.StateTransforms.Model.StructureSelectionFromBundle, function (old) { return (tslib_1.__assign(tslib_1.__assign({}, old), { bundle: residueBundle })); });
+                        builder.to(refs[StructureFocusRepresentationTags.SurrSel]).update(transforms_1.StateTransforms.Model.StructureSelectionFromExpression, function (old) { return (tslib_1.__assign(tslib_1.__assign({}, old), { expression: surroundings, label: _this.surrLabel })); });
                         return [4 /*yield*/, commands_1.PluginCommands.State.Update(this.plugin, { state: state, tree: builder, options: { doNotLogTiming: true, doNotUpdateCurrent: true } })];
                     case 1:
                         _b.sent();
@@ -187,9 +187,9 @@ var StructureFocusRepresentationBehavior = /** @class */ (function (_super) {
         });
     };
     StructureFocusRepresentationBehavior.prototype.update = function (params) {
-        return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
+        return tslib_1.__awaiter(this, void 0, void 0, function () {
             var old, state, builder, all, components, hasComponent, _i, _a, repr, _b, _c, repr, _d, _e, repr;
-            return (0, tslib_1.__generator)(this, function (_f) {
+            return tslib_1.__generator(this, function (_f) {
                 switch (_f.label) {
                     case 0:
                         old = this.params;

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

@@ -26,7 +26,7 @@ var loci_1 = require("../../../../mol-model/loci");
 var assets_1 = require("../../../../mol-util/assets");
 var global_transform_1 = require("../../../../mol-model/structure/model/properties/global-transform");
 var VolumeStreaming = /** @class */ (function (_super) {
-    (0, tslib_1.__extends)(VolumeStreaming, _super);
+    tslib_1.__extends(VolumeStreaming, _super);
     function VolumeStreaming() {
         return _super !== null && _super.apply(this, arguments) || this;
     }
@@ -107,7 +107,7 @@ exports.VolumeStreaming = VolumeStreaming;
     VolumeStreaming.ViewTypeOptions = [['off', 'Off'], ['box', 'Bounded Box'], ['selection-box', 'Around Focus'], ['cell', 'Whole Structure'], ['auto', 'Auto']];
     VolumeStreaming.ChannelTypeOptions = [['em', 'em'], ['2fo-fc', '2fo-fc'], ['fo-fc(+ve)', 'fo-fc(+ve)'], ['fo-fc(-ve)', 'fo-fc(-ve)']];
     var Behavior = /** @class */ (function (_super) {
-        (0, tslib_1.__extends)(Behavior, _super);
+        tslib_1.__extends(Behavior, _super);
         function Behavior(plugin, data) {
             var _this = _super.call(this, plugin, {}) || this;
             _this.plugin = plugin;
@@ -130,9 +130,9 @@ exports.VolumeStreaming = VolumeStreaming;
             configurable: true
         });
         Behavior.prototype.queryData = function (box) {
-            return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
+            return tslib_1.__awaiter(this, void 0, void 0, function () {
                 var url, a, b, detail, entry, urlAsset, asset, data, removed;
-                return (0, tslib_1.__generator)(this, function (_a) {
+                return tslib_1.__generator(this, function (_a) {
                     switch (_a.label) {
                         case 0:
                             url = (0, url_1.urlCombine)(this.data.serverUrl, "".concat(this.info.kind, "/").concat(this.info.dataId.toLowerCase()));
@@ -171,9 +171,9 @@ exports.VolumeStreaming = VolumeStreaming;
             });
         };
         Behavior.prototype.parseCif = function (data) {
-            return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
+            return tslib_1.__awaiter(this, void 0, void 0, function () {
                 var parsed, ret, i, block, densityServerCif, volume;
-                return (0, tslib_1.__generator)(this, function (_a) {
+                return tslib_1.__generator(this, function (_a) {
                     switch (_a.label) {
                         case 0: return [4 /*yield*/, this.plugin.runTask(cif_1.CIF.parseBinary(data))];
                         case 1:
@@ -210,9 +210,9 @@ exports.VolumeStreaming = VolumeStreaming;
             if (this.params.entry.params.view.name !== 'selection-box')
                 return;
             var state = this.plugin.state.data;
-            var newParams = (0, tslib_1.__assign)((0, tslib_1.__assign)({}, this.params), { entry: {
+            var newParams = tslib_1.__assign(tslib_1.__assign({}, this.params), { entry: {
                     name: this.params.entry.name,
-                    params: (0, tslib_1.__assign)((0, tslib_1.__assign)({}, this.params.entry.params), { view: {
+                    params: tslib_1.__assign(tslib_1.__assign({}, this.params.entry.params), { view: {
                             name: 'selection-box',
                             params: {
                                 radius: this.params.entry.params.view.params.radius,
@@ -228,9 +228,9 @@ exports.VolumeStreaming = VolumeStreaming;
             if (this.params.entry.params.view.name !== 'auto')
                 return;
             var state = this.plugin.state.data;
-            var newParams = (0, tslib_1.__assign)((0, tslib_1.__assign)({}, this.params), { entry: {
+            var newParams = tslib_1.__assign(tslib_1.__assign({}, this.params), { entry: {
                     name: this.params.entry.name,
-                    params: (0, tslib_1.__assign)((0, tslib_1.__assign)({}, this.params.entry.params), { view: {
+                    params: tslib_1.__assign(tslib_1.__assign({}, this.params.entry.params), { view: {
                             name: 'auto',
                             params: {
                                 radius: this.params.entry.params.view.params.radius,
@@ -338,9 +338,9 @@ exports.VolumeStreaming = VolumeStreaming;
             this.updateSelectionBoxParams(box);
         };
         Behavior.prototype.update = function (params) {
-            return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
+            return tslib_1.__awaiter(this, void 0, void 0, function () {
                 var switchedToSelection, box, emptyData, r, r, data, _a, info;
-                return (0, tslib_1.__generator)(this, function (_b) {
+                return tslib_1.__generator(this, function (_b) {
                     switch (_b.label) {
                         case 0:
                             switchedToSelection = params.entry.params.view.name === 'selection-box' && this.params && this.params.entry && this.params.entry.params && this.params.entry.params.view && this.params.entry.params.view.name !== 'selection-box';

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

@@ -9,12 +9,12 @@ import { Volume } from '../../../../mol-model/volume';
 import { Structure } from '../../../../mol-model/structure';
 declare const VolumeServerInfo_base: {
     new (data: VolumeServerInfo.Data, props?: {
-        label: string; /** Precision data the server can show. */
+        /** Precision data the server can show. */
+        label: string;
         description?: string | undefined;
     } | undefined): {
         id: import("../../../../mol-util/uuid").UUID;
         type: PluginStateObject.TypeInfo;
-        /** The value are stored in blockSize^3 cubes */
         label: string;
         description?: string | undefined;
         data: VolumeServerInfo.Data;
@@ -23,7 +23,6 @@ declare const VolumeServerInfo_base: {
     is(obj?: import("../../../../mol-state/object").StateObject<any, import("../../../../mol-state/object").StateObject.Type<any>> | undefined): obj is {
         id: import("../../../../mol-util/uuid").UUID;
         type: PluginStateObject.TypeInfo;
-        /** The value are stored in blockSize^3 cubes */
         label: string;
         description?: string | undefined;
         data: VolumeServerInfo.Data;

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

@@ -10,7 +10,7 @@ exports.VolumeServerHeader = exports.VolumeServerInfo = void 0;
 var tslib_1 = require("tslib");
 var objects_1 = require("../../../../mol-plugin-state/objects");
 var VolumeServerInfo = /** @class */ (function (_super) {
-    (0, tslib_1.__extends)(VolumeServerInfo, _super);
+    tslib_1.__extends(VolumeServerInfo, _super);
     function VolumeServerInfo() {
         return _super !== null && _super.apply(this, arguments) || this;
     }

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

@@ -62,9 +62,9 @@ exports.InitVolumeStreaming = mol_state_1.StateAction.build({
     }
 })(function (_a, plugin) {
     var ref = _a.ref, state = _a.state, params = _a.params;
-    return mol_task_1.Task.create('Volume Streaming', function (taskCtx) { return (0, tslib_1.__awaiter)(void 0, void 0, void 0, function () {
+    return mol_task_1.Task.create('Volume Streaming', function (taskCtx) { return tslib_1.__awaiter(void 0, void 0, void 0, function () {
         var entries, i, il, dataId, emDefaultContourLevel, emdbIds, j, jl, emdbId, contourLevel, e_1, e_2, infoTree, info, children, infoObj, behTree;
-        return (0, tslib_1.__generator)(this, function (_a) {
+        return tslib_1.__generator(this, function (_a) {
             switch (_a.label) {
                 case 0:
                     entries = [];
@@ -171,9 +171,9 @@ exports.BoxifyVolumeStreaming = mol_state_1.StateAction.build({
     var box = geometry_1.Box3D.create(linear_algebra_1.Vec3.clone(params.entry.params.view.params.bottomLeft), linear_algebra_1.Vec3.clone(params.entry.params.view.params.topRight));
     var r = params.entry.params.view.params.radius;
     geometry_1.Box3D.expand(box, box, linear_algebra_1.Vec3.create(r, r, r));
-    var newParams = (0, tslib_1.__assign)((0, tslib_1.__assign)({}, params), { entry: {
+    var newParams = tslib_1.__assign(tslib_1.__assign({}, params), { entry: {
             name: params.entry.name,
-            params: (0, tslib_1.__assign)((0, tslib_1.__assign)({}, params.entry.params), { view: {
+            params: tslib_1.__assign(tslib_1.__assign({}, params.entry.params), { view: {
                     name: 'box',
                     params: {
                         bottomLeft: box.min,
@@ -211,9 +211,9 @@ var CreateVolumeStreamingInfo = objects_1.PluginStateTransform.BuiltIn({
 })({
     apply: function (_a, plugin) {
         var a = _a.a, params = _a.params;
-        return mol_task_1.Task.create('', function (taskCtx) { return (0, tslib_1.__awaiter)(void 0, void 0, void 0, function () {
+        return mol_task_1.Task.create('', function (taskCtx) { return tslib_1.__awaiter(void 0, void 0, void 0, function () {
             var entries, i, il, e, dataId, emDefaultContourLevel, header, data;
-            return (0, tslib_1.__generator)(this, function (_a) {
+            return tslib_1.__generator(this, function (_a) {
                 switch (_a.label) {
                     case 0:
                         entries = [];
@@ -270,9 +270,9 @@ var CreateVolumeStreamingBehavior = objects_1.PluginStateTransform.BuiltIn({
     },
     apply: function (_a, plugin) {
         var a = _a.a, params = _a.params;
-        return mol_task_1.Task.create('Volume streaming', function (_) { return (0, tslib_1.__awaiter)(void 0, void 0, void 0, function () {
+        return mol_task_1.Task.create('Volume streaming', function (_) { return tslib_1.__awaiter(void 0, void 0, void 0, function () {
             var behavior;
-            return (0, tslib_1.__generator)(this, function (_a) {
+            return tslib_1.__generator(this, function (_a) {
                 switch (_a.label) {
                     case 0:
                         behavior = new behavior_1.VolumeStreaming.Behavior(plugin, a.data);
@@ -287,9 +287,9 @@ var CreateVolumeStreamingBehavior = objects_1.PluginStateTransform.BuiltIn({
     update: function (_a) {
         var _this = this;
         var a = _a.a, b = _a.b, oldParams = _a.oldParams, newParams = _a.newParams;
-        return mol_task_1.Task.create('Update Volume Streaming', function (_) { return (0, tslib_1.__awaiter)(_this, void 0, void 0, function () {
+        return mol_task_1.Task.create('Update Volume Streaming', function (_) { return tslib_1.__awaiter(_this, void 0, void 0, function () {
             var emDefaultContourLevel, ret;
-            return (0, tslib_1.__generator)(this, function (_a) {
+            return tslib_1.__generator(this, function (_a) {
                 switch (_a.label) {
                     case 0:
                         if (oldParams.entry.name !== newParams.entry.name) {
@@ -322,10 +322,10 @@ var VolumeStreamingVisual = objects_1.PluginStateTransform.BuiltIn({
 })({
     apply: function (_a, plugin) {
         var a = _a.a, srcParams = _a.params, spine = _a.spine;
-        return mol_task_1.Task.create('Volume Representation', function (ctx) { return (0, tslib_1.__awaiter)(void 0, void 0, void 0, function () {
+        return mol_task_1.Task.create('Volume Representation', function (ctx) { return tslib_1.__awaiter(void 0, void 0, void 0, function () {
             var channel, params, provider, props, repr, structure, transform;
             var _a, _b;
-            return (0, tslib_1.__generator)(this, function (_c) {
+            return tslib_1.__generator(this, function (_c) {
                 switch (_c.label) {
                     case 0:
                         channel = a.data.channels[srcParams.channel];
@@ -334,7 +334,7 @@ var VolumeStreamingVisual = objects_1.PluginStateTransform.BuiltIn({
                         params = createVolumeProps(a.data, srcParams.channel);
                         provider = registry_1.VolumeRepresentationRegistry.BuiltIn.isosurface;
                         props = params.type.params || {};
-                        repr = provider.factory((0, tslib_1.__assign)({ webgl: (_a = plugin.canvas3d) === null || _a === void 0 ? void 0 : _a.webgl }, plugin.representation.volume.themes), provider.getParams);
+                        repr = provider.factory(tslib_1.__assign({ webgl: (_a = plugin.canvas3d) === null || _a === void 0 ? void 0 : _a.webgl }, plugin.representation.volume.themes), provider.getParams);
                         repr.setTheme(theme_1.Theme.create(plugin.representation.volume.themes, { volume: channel.data }, params));
                         structure = (_b = spine.getAncestorOfType(objects_1.PluginStateObject.Molecule.Structure)) === null || _b === void 0 ? void 0 : _b.data;
                         transform = (structure === null || structure === void 0 ? void 0 : structure.models.length) === 0 ? void 0 : global_transform_1.GlobalModelTransformInfo.get(structure === null || structure === void 0 ? void 0 : structure.models[0]);
@@ -350,9 +350,9 @@ var VolumeStreamingVisual = objects_1.PluginStateTransform.BuiltIn({
     },
     update: function (_a, plugin) {
         var a = _a.a, b = _a.b, newParams = _a.newParams, spine = _a.spine;
-        return mol_task_1.Task.create('Volume Representation', function (ctx) { return (0, tslib_1.__awaiter)(void 0, void 0, void 0, function () {
+        return mol_task_1.Task.create('Volume Representation', function (ctx) { return tslib_1.__awaiter(void 0, void 0, void 0, function () {
             var channel, visible, params, props;
-            return (0, tslib_1.__generator)(this, function (_a) {
+            return tslib_1.__generator(this, function (_a) {
                 switch (_a.label) {
                     case 0:
                         channel = a.data.channels[newParams.channel];
@@ -361,7 +361,7 @@ var VolumeStreamingVisual = objects_1.PluginStateTransform.BuiltIn({
                             return [2 /*return*/, mol_state_1.StateTransformer.UpdateResult.Unchanged];
                         visible = b.data.repr.state.visible;
                         params = createVolumeProps(a.data, newParams.channel);
-                        props = (0, tslib_1.__assign)((0, tslib_1.__assign)({}, b.data.repr.props), params.type.params);
+                        props = tslib_1.__assign(tslib_1.__assign({}, b.data.repr.props), params.type.params);
                         b.data.repr.setTheme(theme_1.Theme.create(plugin.representation.volume.themes, { volume: channel.data }, params));
                         return [4 /*yield*/, b.data.repr.createOrUpdate(props, channel.data).runInContext(ctx)];
                     case 1: