molstar 2.3.6 → 2.4.0

package/lib/commonjs/mol-plugin-state/formats/volume.d.ts

@@ -20,7 +20,7 @@ export declare const Ccp4Provider: {
     description: string;
     category: string;
     binaryExtensions: string[];
-    parse: (plugin: PluginContext, data: import("../../mol-state").StateObjectRef<PluginStateObject.Data.Binary | PluginStateObject.Data.String>, params?: Params | undefined) => Promise<{
+    parse: (plugin: PluginContext, data: import("../../mol-state").StateObjectRef<PluginStateObject.Data.String | PluginStateObject.Data.Binary>, params?: Params | undefined) => Promise<{
         format: StateObjectSelector<PluginStateObject.Format.Ccp4, import("../../mol-state/transformer").StateTransformer<PluginStateObject.Data.Binary, PluginStateObject.Format.Ccp4, import("../../mol-util/param-definition").ParamDefinition.Normalize<{}>>>;
         volume: StateObjectSelector<PluginStateObject.Volume.Data, import("../../mol-state/transformer").StateTransformer<PluginStateObject.Format.Ccp4, PluginStateObject.Volume.Data, import("../../mol-util/param-definition").ParamDefinition.Normalize<{
             voxelSize: import("../../mol-math/linear-algebra/3d/vec3").Vec3;
@@ -35,7 +35,7 @@ export declare const Dsn6Provider: {
     description: string;
     category: string;
     binaryExtensions: string[];
-    parse: (plugin: PluginContext, data: import("../../mol-state").StateObjectRef<PluginStateObject.Data.Binary | PluginStateObject.Data.String>, params?: Params | undefined) => Promise<{
+    parse: (plugin: PluginContext, data: import("../../mol-state").StateObjectRef<PluginStateObject.Data.String | PluginStateObject.Data.Binary>, params?: Params | undefined) => Promise<{
         format: StateObjectSelector<PluginStateObject.Format.Dsn6, import("../../mol-state/transformer").StateTransformer<PluginStateObject.Data.Binary, PluginStateObject.Format.Dsn6, import("../../mol-util/param-definition").ParamDefinition.Normalize<{}>>>;
         volume: StateObjectSelector<PluginStateObject.Volume.Data, import("../../mol-state/transformer").StateTransformer<PluginStateObject.Format.Dsn6, PluginStateObject.Volume.Data, import("../../mol-util/param-definition").ParamDefinition.Normalize<{
             voxelSize: import("../../mol-math/linear-algebra/3d/vec3").Vec3;
@@ -50,7 +50,7 @@ export declare const DxProvider: {
     category: string;
     stringExtensions: string[];
     binaryExtensions: string[];
-    parse: (plugin: PluginContext, data: import("../../mol-state").StateObjectRef<PluginStateObject.Data.Binary | PluginStateObject.Data.String>, params?: Params | undefined) => Promise<{
+    parse: (plugin: PluginContext, data: import("../../mol-state").StateObjectRef<PluginStateObject.Data.String | PluginStateObject.Data.Binary>, params?: Params | undefined) => Promise<{
         volume: StateObjectSelector<PluginStateObject.Volume.Data, import("../../mol-state/transformer").StateTransformer<PluginStateObject.Format.Dx, PluginStateObject.Volume.Data, import("../../mol-util/param-definition").ParamDefinition.Normalize<{}>>>;
     }>;
     visuals: typeof defaultVisuals;
@@ -60,7 +60,7 @@ export declare const CubeProvider: {
     description: string;
     category: string;
     stringExtensions: string[];
-    parse: (plugin: PluginContext, data: import("../../mol-state").StateObjectRef<PluginStateObject.Data.Binary | PluginStateObject.Data.String>, params?: Params | undefined) => Promise<{
+    parse: (plugin: PluginContext, data: import("../../mol-state").StateObjectRef<PluginStateObject.Data.String | PluginStateObject.Data.Binary>, params?: Params | undefined) => Promise<{
         format: StateObjectSelector<PluginStateObject.Format.Cube, import("../../mol-state/transformer").StateTransformer<PluginStateObject.Data.String, PluginStateObject.Format.Cube, import("../../mol-util/param-definition").ParamDefinition.Normalize<{}>>>;
         volume: StateObjectSelector<PluginStateObject.Volume.Data, import("../../mol-state/transformer").StateTransformer<PluginStateObject.Format.Cube, PluginStateObject.Volume.Data, import("../../mol-util/param-definition").ParamDefinition.Normalize<{
             dataIndex: number;
@@ -73,13 +73,13 @@ export declare const CubeProvider: {
                 ijkMax: any;
             }>, "symmetry"> | import("../../mol-util/param-definition").ParamDefinition.NamedParams<import("../../mol-util/param-definition").ParamDefinition.Normalize<{
                 dynamicBonds: any;
+            }>, "model"> | import("../../mol-util/param-definition").ParamDefinition.NamedParams<import("../../mol-util/param-definition").ParamDefinition.Normalize<{
+                dynamicBonds: any;
                 id: any;
             }>, "assembly"> | import("../../mol-util/param-definition").ParamDefinition.NamedParams<import("../../mol-util/param-definition").ParamDefinition.Normalize<{
                 dynamicBonds: any;
             }>, "auto"> | import("../../mol-util/param-definition").ParamDefinition.NamedParams<import("../../mol-util/param-definition").ParamDefinition.Normalize<{
                 dynamicBonds: any;
-            }>, "model"> | import("../../mol-util/param-definition").ParamDefinition.NamedParams<import("../../mol-util/param-definition").ParamDefinition.Normalize<{
-                dynamicBonds: any;
                 radius: any;
             }>, "symmetry-mates"> | import("../../mol-util/param-definition").ParamDefinition.NamedParams<import("../../mol-util/param-definition").ParamDefinition.Normalize<{
                 dynamicBonds: any;
@@ -102,7 +102,7 @@ export declare const DscifProvider: {
     stringExtensions: string[];
     binaryExtensions: string[];
     isApplicable: (info: import("../../mol-util/file-info").FileInfo, data: string | Uint8Array) => boolean;
-    parse: (plugin: PluginContext, data: import("../../mol-state").StateObjectRef<PluginStateObject.Data.Binary | PluginStateObject.Data.String>, params?: DsCifParams | undefined) => Promise<{
+    parse: (plugin: PluginContext, data: import("../../mol-state").StateObjectRef<PluginStateObject.Data.String | PluginStateObject.Data.Binary>, params?: DsCifParams | undefined) => Promise<{
         volumes: StateObjectSelector<PluginStateObject.Volume.Data, import("../../mol-state/transformer").StateTransformer<import("../../mol-state/object").StateObject<any, import("../../mol-state/object").StateObject.Type<any>>, import("../../mol-state/object").StateObject<any, import("../../mol-state/object").StateObject.Type<any>>, any>>[];
     }>;
     visuals: (plugin: PluginContext, data: {
@@ -114,7 +114,7 @@ export declare const BuiltInVolumeFormats: readonly [readonly ["ccp4", {
     description: string;
     category: string;
     binaryExtensions: string[];
-    parse: (plugin: PluginContext, data: import("../../mol-state").StateObjectRef<PluginStateObject.Data.Binary | PluginStateObject.Data.String>, params?: Params | undefined) => Promise<{
+    parse: (plugin: PluginContext, data: import("../../mol-state").StateObjectRef<PluginStateObject.Data.String | PluginStateObject.Data.Binary>, params?: Params | undefined) => Promise<{
         format: StateObjectSelector<PluginStateObject.Format.Ccp4, import("../../mol-state/transformer").StateTransformer<PluginStateObject.Data.Binary, PluginStateObject.Format.Ccp4, import("../../mol-util/param-definition").ParamDefinition.Normalize<{}>>>;
         volume: StateObjectSelector<PluginStateObject.Volume.Data, import("../../mol-state/transformer").StateTransformer<PluginStateObject.Format.Ccp4, PluginStateObject.Volume.Data, import("../../mol-util/param-definition").ParamDefinition.Normalize<{
             voxelSize: import("../../mol-math/linear-algebra/3d/vec3").Vec3;
@@ -128,7 +128,7 @@ export declare const BuiltInVolumeFormats: readonly [readonly ["ccp4", {
     description: string;
     category: string;
     binaryExtensions: string[];
-    parse: (plugin: PluginContext, data: import("../../mol-state").StateObjectRef<PluginStateObject.Data.Binary | PluginStateObject.Data.String>, params?: Params | undefined) => Promise<{
+    parse: (plugin: PluginContext, data: import("../../mol-state").StateObjectRef<PluginStateObject.Data.String | PluginStateObject.Data.Binary>, params?: Params | undefined) => Promise<{
         format: StateObjectSelector<PluginStateObject.Format.Dsn6, import("../../mol-state/transformer").StateTransformer<PluginStateObject.Data.Binary, PluginStateObject.Format.Dsn6, import("../../mol-util/param-definition").ParamDefinition.Normalize<{}>>>;
         volume: StateObjectSelector<PluginStateObject.Volume.Data, import("../../mol-state/transformer").StateTransformer<PluginStateObject.Format.Dsn6, PluginStateObject.Volume.Data, import("../../mol-util/param-definition").ParamDefinition.Normalize<{
             voxelSize: import("../../mol-math/linear-algebra/3d/vec3").Vec3;
@@ -141,7 +141,7 @@ export declare const BuiltInVolumeFormats: readonly [readonly ["ccp4", {
     description: string;
     category: string;
     stringExtensions: string[];
-    parse: (plugin: PluginContext, data: import("../../mol-state").StateObjectRef<PluginStateObject.Data.Binary | PluginStateObject.Data.String>, params?: Params | undefined) => Promise<{
+    parse: (plugin: PluginContext, data: import("../../mol-state").StateObjectRef<PluginStateObject.Data.String | PluginStateObject.Data.Binary>, params?: Params | undefined) => Promise<{
         format: StateObjectSelector<PluginStateObject.Format.Cube, import("../../mol-state/transformer").StateTransformer<PluginStateObject.Data.String, PluginStateObject.Format.Cube, import("../../mol-util/param-definition").ParamDefinition.Normalize<{}>>>;
         volume: StateObjectSelector<PluginStateObject.Volume.Data, import("../../mol-state/transformer").StateTransformer<PluginStateObject.Format.Cube, PluginStateObject.Volume.Data, import("../../mol-util/param-definition").ParamDefinition.Normalize<{
             dataIndex: number;
@@ -154,13 +154,13 @@ export declare const BuiltInVolumeFormats: readonly [readonly ["ccp4", {
                 ijkMax: any;
             }>, "symmetry"> | import("../../mol-util/param-definition").ParamDefinition.NamedParams<import("../../mol-util/param-definition").ParamDefinition.Normalize<{
                 dynamicBonds: any;
+            }>, "model"> | import("../../mol-util/param-definition").ParamDefinition.NamedParams<import("../../mol-util/param-definition").ParamDefinition.Normalize<{
+                dynamicBonds: any;
                 id: any;
             }>, "assembly"> | import("../../mol-util/param-definition").ParamDefinition.NamedParams<import("../../mol-util/param-definition").ParamDefinition.Normalize<{
                 dynamicBonds: any;
             }>, "auto"> | import("../../mol-util/param-definition").ParamDefinition.NamedParams<import("../../mol-util/param-definition").ParamDefinition.Normalize<{
                 dynamicBonds: any;
-            }>, "model"> | import("../../mol-util/param-definition").ParamDefinition.NamedParams<import("../../mol-util/param-definition").ParamDefinition.Normalize<{
-                dynamicBonds: any;
                 radius: any;
             }>, "symmetry-mates"> | import("../../mol-util/param-definition").ParamDefinition.NamedParams<import("../../mol-util/param-definition").ParamDefinition.Normalize<{
                 dynamicBonds: any;
@@ -178,7 +178,7 @@ export declare const BuiltInVolumeFormats: readonly [readonly ["ccp4", {
     category: string;
     stringExtensions: string[];
     binaryExtensions: string[];
-    parse: (plugin: PluginContext, data: import("../../mol-state").StateObjectRef<PluginStateObject.Data.Binary | PluginStateObject.Data.String>, params?: Params | undefined) => Promise<{
+    parse: (plugin: PluginContext, data: import("../../mol-state").StateObjectRef<PluginStateObject.Data.String | PluginStateObject.Data.Binary>, params?: Params | undefined) => Promise<{
         volume: StateObjectSelector<PluginStateObject.Volume.Data, import("../../mol-state/transformer").StateTransformer<PluginStateObject.Format.Dx, PluginStateObject.Volume.Data, import("../../mol-util/param-definition").ParamDefinition.Normalize<{}>>>;
     }>;
     visuals: typeof defaultVisuals;
@@ -189,7 +189,7 @@ export declare const BuiltInVolumeFormats: readonly [readonly ["ccp4", {
     stringExtensions: string[];
     binaryExtensions: string[];
     isApplicable: (info: import("../../mol-util/file-info").FileInfo, data: string | Uint8Array) => boolean;
-    parse: (plugin: PluginContext, data: import("../../mol-state").StateObjectRef<PluginStateObject.Data.Binary | PluginStateObject.Data.String>, params?: DsCifParams | undefined) => Promise<{
+    parse: (plugin: PluginContext, data: import("../../mol-state").StateObjectRef<PluginStateObject.Data.String | PluginStateObject.Data.Binary>, params?: DsCifParams | undefined) => Promise<{
         volumes: StateObjectSelector<PluginStateObject.Volume.Data, import("../../mol-state/transformer").StateTransformer<import("../../mol-state/object").StateObject<any, import("../../mol-state/object").StateObject.Type<any>>, import("../../mol-state/object").StateObject<any, import("../../mol-state/object").StateObject.Type<any>>, any>>[];
     }>;
     visuals: (plugin: PluginContext, data: {

package/lib/commonjs/mol-plugin-state/formats/volume.js

@@ -43,6 +43,7 @@ function tryObtainRecommendedIsoValue(plugin, volume) {
                                 return [3 /*break*/, 3];
                             case 2:
                                 e_1 = _a.sent();
+                                console.warn(e_1);
                                 return [3 /*break*/, 3];
                             case 3: return [2 /*return*/];
                         }

package/lib/commonjs/mol-plugin-state/formats/volume.js.map

@@ -1 +1 @@
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package/lib/commonjs/mol-plugin-state/helpers/root-structure.d.ts

@@ -18,13 +18,13 @@ export declare namespace RootStructureDefinition {
             ijkMax: Vec3;
         }>, "symmetry"> | PD.NamedParams<PD.Normalize<{
             dynamicBonds: boolean | undefined;
+        }>, "model"> | PD.NamedParams<PD.Normalize<{
+            dynamicBonds: boolean | undefined;
             id: string | undefined;
         }>, "assembly"> | PD.NamedParams<PD.Normalize<{
             dynamicBonds: boolean | undefined;
         }>, "auto"> | PD.NamedParams<PD.Normalize<{
             dynamicBonds: boolean | undefined;
-        }>, "model"> | PD.NamedParams<PD.Normalize<{
-            dynamicBonds: boolean | undefined;
             radius: number;
         }>, "symmetry-mates"> | PD.NamedParams<PD.Normalize<{
             dynamicBonds: boolean | undefined;

package/lib/commonjs/mol-plugin-state/helpers/root-structure.js

@@ -23,19 +23,19 @@ var RootStructureDefinition;
 (function (RootStructureDefinition) {
     function getParams(model, defaultValue) {
         var symmetry = model && symmetry_2.ModelSymmetry.Provider.get(model);
-        var assemblyIds = symmetry ? symmetry.assemblies.map(function (a) { return [a.id, a.id + ": " + (0, string_1.stringToWords)(a.details)]; }) : [];
+        var assemblyIds = symmetry ? symmetry.assemblies.map(function (a) { return [a.id, "".concat(a.id, ": ").concat((0, string_1.stringToWords)(a.details))]; }) : [];
         var showSymm = !symmetry ? true : !geometry_1.SpacegroupCell.isZero(symmetry.spacegroup.cell);
         var operatorOptions = [];
         if (symmetry) {
             var operators = symmetry.spacegroup.operators;
             for (var i = 0, il = operators.length; i < il; i++) {
-                operatorOptions.push([i, i + 1 + ": " + geometry_1.Spacegroup.getOperatorXyz(operators[i])]);
+                operatorOptions.push([i, "".concat(i + 1, ": ").concat(geometry_1.Spacegroup.getOperatorXyz(operators[i]))]);
             }
         }
         var asymIdsOptions = [];
         if (model) {
             model.properties.structAsymMap.forEach(function (v) {
-                var label = v.id === v.auth_id ? v.id : v.id + " [auth " + v.auth_id + "]";
+                var label = v.id === v.auth_id ? v.id : "".concat(v.id, " [auth ").concat(v.auth_id, "]");
                 asymIdsOptions.push([v.id, label]);
             });
         }
@@ -51,11 +51,11 @@ var RootStructureDefinition;
                     operators: param_definition_1.ParamDefinition.ObjectList({
                         index: param_definition_1.ParamDefinition.Select(0, operatorOptions),
                         shift: param_definition_1.ParamDefinition.Vec3((0, linear_algebra_1.Vec3)(), { step: 1 }, { label: 'IJK', fieldLabels: { x: 'I', y: 'J', z: 'K' } })
-                    }, function (e) { return e.index + 1 + "_" + e.shift.map(function (a) { return a + 5; }).join(''); }, {
+                    }, function (e) { return "".concat(e.index + 1, "_").concat(e.shift.map(function (a) { return a + 5; }).join('')); }, {
                         defaultValue: []
                     }),
                     asymIds: param_definition_1.ParamDefinition.MultiSelect([], asymIdsOptions)
-                }, function (e) { return e.asymIds.length + " asym ids, " + e.operators.length + " operators"; }, {
+                }, function (e) { return "".concat(e.asymIds.length, " asym ids, ").concat(e.operators.length, " operators"); }, {
                     defaultValue: []
                 }) }, CommonStructureParams), { isFlat: true })
         };
@@ -96,12 +96,12 @@ var RootStructureDefinition;
                             id = symmetry.assemblies[0].id;
                         }
                         if (!symmetry || symmetry.assemblies.length === 0) {
-                            plugin.log.warn("Model '" + model.entryId + "' has no assembly, returning model structure.");
+                            plugin.log.warn("Model '".concat(model.entryId, "' has no assembly, returning model structure."));
                         }
                         else {
                             asm = symmetry_1.Symmetry.findAssembly(model, id || '');
                             if (!asm) {
-                                plugin.log.warn("Model '" + model.entryId + "' has no assembly called '" + id + "', returning model structure.");
+                                plugin.log.warn("Model '".concat(model.entryId, "' has no assembly called '").concat(id, "', returning model structure."));
                             }
                         }
                         base = structure_1.Structure.ofModel(model, props);
@@ -113,7 +113,7 @@ var RootStructureDefinition;
                         return [4 /*yield*/, structure_1.StructureSymmetry.buildAssembly(base, id).runInContext(ctx)];
                     case 1:
                         s = _a.sent();
-                        objProps = { label: "Assembly " + id, description: structure_1.Structure.elementDescription(s) };
+                        objProps = { label: "Assembly ".concat(id), description: structure_1.Structure.elementDescription(s) };
                         return [2 /*return*/, new objects_1.PluginStateObject.Molecule.Structure(s, objProps)];
                 }
             });
@@ -129,7 +129,7 @@ var RootStructureDefinition;
                         return [4 /*yield*/, structure_1.StructureSymmetry.buildSymmetryRange(base, ijkMin, ijkMax).runInContext(ctx)];
                     case 1:
                         s = _a.sent();
-                        objProps = { label: "Symmetry [" + ijkMin + "] to [" + ijkMax + "]", description: structure_1.Structure.elementDescription(s) };
+                        objProps = { label: "Symmetry [".concat(ijkMin, "] to [").concat(ijkMax, "]"), description: structure_1.Structure.elementDescription(s) };
                         return [2 /*return*/, new objects_1.PluginStateObject.Molecule.Structure(s, objProps)];
                 }
             });
@@ -198,7 +198,7 @@ var RootStructureDefinition;
                 if (params.name === 'symmetry-assembly') {
                     return [2 /*return*/, buildSymmetryAssembly(ctx, model, params.params.generators, symmetry, props)];
                 }
-                throw new Error("Unknown represetation type: " + params.name);
+                throw new Error("Unknown represetation type: ".concat(params.name));
             });
         });
     }

package/lib/commonjs/mol-plugin-state/helpers/root-structure.js.map

@@ -1 +1 @@
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package/lib/commonjs/mol-plugin-state/helpers/structure-component.d.ts

@@ -21,7 +21,7 @@ export declare type StructureComponentParams = PD.ValuesFor<ReturnType<typeof St
 export declare function createStructureComponent(a: Structure, params: StructureComponentParams, cache: {
     source: Structure;
     entry?: StructureQueryHelper.CacheEntry;
-}): SO.Molecule.Structure | StateObject<any, any>;
+}): StateObject<any, any> | SO.Molecule.Structure;
 export declare function updateStructureComponent(a: Structure, b: SO.Molecule.Structure, oldParams: StructureComponentParams, newParams: StructureComponentParams, cache: {
     source: Structure;
     entry?: StructureQueryHelper.CacheEntry;

package/lib/commonjs/mol-plugin-state/helpers/structure-component.js

@@ -90,7 +90,7 @@ function createStructureComponent(a, params, cache) {
                     query = structure_selection_query_1.StructureSelectionQueries.coarse.query;
                     label = 'Coarse';
                     break;
-                default: throw new Error(params.type + " is a not valid complex element.");
+                default: throw new Error("".concat(params.type, " is a not valid complex element."));
             }
             var result = query(new structure_1.QueryContext(a));
             component = structure_1.StructureSelection.unionStructure(result);
@@ -112,7 +112,7 @@ function createStructureComponent(a, params, cache) {
     }
     if (params.nullIfEmpty && component.elementCount === 0)
         return mol_state_1.StateObject.Null;
-    var props = { label: "" + (params.label || label || 'Component'), description: structure_1.Structure.elementDescription(component) };
+    var props = { label: "".concat(params.label || label || 'Component'), description: structure_1.Structure.elementDescription(component) };
     return new objects_1.PluginStateObject.Molecule.Structure(component, props);
 }
 exports.createStructureComponent = createStructureComponent;
@@ -176,7 +176,7 @@ function updateStructureComponent(a, b, oldParams, newParams, cache) {
     }
     if (oldParams.label !== newParams.label) {
         updated = true;
-        b.label = "" + (newParams.label || b.label);
+        b.label = "".concat(newParams.label || b.label);
     }
     return updated ? mol_state_1.StateTransformer.UpdateResult.Updated : mol_state_1.StateTransformer.UpdateResult.Unchanged;
 }

package/lib/commonjs/mol-plugin-state/helpers/structure-component.js.map

@@ -1 +1 @@
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package/lib/commonjs/mol-plugin-state/helpers/structure-query.js

@@ -43,7 +43,7 @@ var StructureQueryHelper;
     StructureQueryHelper.updateStructure = updateStructure;
     function updateStructureObject(obj, selection, label) {
         var s = structure_1.StructureSelection.unionStructure(selection);
-        obj.label = "" + (label || 'Selection');
+        obj.label = "".concat(label || 'Selection');
         obj.description = structure_1.Structure.elementDescription(s);
         obj.data = s;
     }

package/lib/commonjs/mol-plugin-state/helpers/structure-query.js.map

@@ -1 +1 @@
-{"version":3,"file":"structure-query.js","sourceRoot":"","sources":["../../../../src/mol-plugin-state/helpers/structure-query.ts"],"names":[],"mappings":";AAAA;;;;GAIG;;;AAGH,uDAAwG;AACxG,kDAAiD;AACjD,oEAAkE;AAIlE,IAAU,oBAAoB,CA6C7B;AA7CD,WAAU,oBAAoB;IAS1B,SAAgB,WAAW,CAAC,KAAiB,EAAE,KAA0B,EAAE,SAAoB;QAC3F,IAAI,KAAK,CAAC,gBAAgB,KAAK,SAAS;YAAE,OAAO,KAAK,CAAC;QACvD,IAAI,eAAM,CAAC,EAAE,CAAC,KAAK,CAAC,EAAE;YAClB,OAAO,CAAC,CAAC,KAAK,CAAC,MAAM,IAAI,eAAM,CAAC,QAAQ,CAAC,KAAK,CAAC,MAAM,EAAE,KAAK,CAAC,CAAC;SACjE;QACD,OAAO,KAAK,CAAC,UAAU,KAAK,KAAK,CAAC;IACtC,CAAC;IANe,gCAAW,cAM1B,CAAA;IAED,SAAgB,MAAM,CAAC,SAAoB,EAAE,KAA0B;QACnE,IAAM,MAAM,GAAG,eAAM,CAAC,EAAE,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,KAAK,CAAC,CAAC,CAAC,KAAK,CAAC,CAAC;QACjD,IAAM,UAAU,GAAG,eAAM,CAAC,EAAE,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,eAAM,CAAC,YAAY,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,KAAK,CAAC;QACzE,IAAM,QAAQ,GAAG,IAAA,kBAAO,EAAM,UAAU,CAAC,CAAC;QAE1C,OAAO,EAAE,MAAM,QAAA,EAAE,UAAU,YAAA,EAAE,QAAQ,UAAA,EAAE,iBAAiB,EAAE,SAAS,EAAE,gBAAgB,EAAE,SAAS,EAAE,CAAC;IACvG,CAAC;IANe,2BAAM,SAMrB,CAAA;IAED,SAAgB,GAAG,CAAC,KAAiB,EAAE,SAAoB;QACvD,OAAO,KAAK,CAAC,QAAQ,CAAC,IAAI,wBAAY,CAAC,SAAS,CAAC,CAAC,CAAC;IACvD,CAAC;IAFe,wBAAG,MAElB,CAAA;IAED,SAAgB,YAAY,CAAC,SAAoB,EAAE,KAA0B;QACzE,IAAM,KAAK,GAAG,MAAM,CAAC,SAAS,EAAE,KAAK,CAAC,CAAC;QACvC,OAAO,EAAE,KAAK,OAAA,EAAE,SAAS,EAAE,GAAG,CAAC,KAAK,EAAE,SAAS,CAAC,EAAE,CAAC;IACvD,CAAC;IAHe,iCAAY,eAG3B,CAAA;IAED,SAAgB,eAAe,CAAC,KAAiB,EAAE,SAAoB;QACnE,KAAK,CAAC,gBAAgB,GAAG,SAAS,CAAC;QACnC,OAAO,KAAK,CAAC,QAAQ,CAAC,IAAI,wBAAY,CAAC,SAAS,CAAC,CAAC,CAAC;IACvD,CAAC;IAHe,oCAAe,kBAG9B,CAAA;IAED,SAAgB,qBAAqB,CAAC,GAA0B,EAAE,SAAc,EAAE,KAAc;QAC5F,IAAM,CAAC,GAAG,8BAAG,CAAC,cAAc,CAAC,SAAS,CAAC,CAAC;QACxC,GAAG,CAAC,KAAK,GAAG,MAAG,KAAK,IAAI,WAAW,CAAE,CAAC;QACtC,GAAG,CAAC,WAAW,GAAG,qBAAS,CAAC,kBAAkB,CAAC,CAAC,CAAC,CAAC;QAClD,GAAG,CAAC,IAAI,GAAG,CAAC,CAAC;IACjB,CAAC;IALe,0CAAqB,wBAKpC,CAAA;AACL,CAAC,EA7CS,oBAAoB,KAApB,oBAAoB,QA6C7B;AA9CQ,oDAAoB"}
+{"version":3,"file":"structure-query.js","sourceRoot":"","sources":["../../../../src/mol-plugin-state/helpers/structure-query.ts"],"names":[],"mappings":";AAAA;;;;GAIG;;;AAGH,uDAAwG;AACxG,kDAAiD;AACjD,oEAAkE;AAIlE,IAAU,oBAAoB,CA6C7B;AA7CD,WAAU,oBAAoB;IAS1B,SAAgB,WAAW,CAAC,KAAiB,EAAE,KAA0B,EAAE,SAAoB;QAC3F,IAAI,KAAK,CAAC,gBAAgB,KAAK,SAAS;YAAE,OAAO,KAAK,CAAC;QACvD,IAAI,eAAM,CAAC,EAAE,CAAC,KAAK,CAAC,EAAE;YAClB,OAAO,CAAC,CAAC,KAAK,CAAC,MAAM,IAAI,eAAM,CAAC,QAAQ,CAAC,KAAK,CAAC,MAAM,EAAE,KAAK,CAAC,CAAC;SACjE;QACD,OAAO,KAAK,CAAC,UAAU,KAAK,KAAK,CAAC;IACtC,CAAC;IANe,gCAAW,cAM1B,CAAA;IAED,SAAgB,MAAM,CAAC,SAAoB,EAAE,KAA0B;QACnE,IAAM,MAAM,GAAG,eAAM,CAAC,EAAE,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,KAAK,CAAC,CAAC,CAAC,KAAK,CAAC,CAAC;QACjD,IAAM,UAAU,GAAG,eAAM,CAAC,EAAE,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,eAAM,CAAC,YAAY,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,KAAK,CAAC;QACzE,IAAM,QAAQ,GAAG,IAAA,kBAAO,EAAM,UAAU,CAAC,CAAC;QAE1C,OAAO,EAAE,MAAM,QAAA,EAAE,UAAU,YAAA,EAAE,QAAQ,UAAA,EAAE,iBAAiB,EAAE,SAAS,EAAE,gBAAgB,EAAE,SAAS,EAAE,CAAC;IACvG,CAAC;IANe,2BAAM,SAMrB,CAAA;IAED,SAAgB,GAAG,CAAC,KAAiB,EAAE,SAAoB;QACvD,OAAO,KAAK,CAAC,QAAQ,CAAC,IAAI,wBAAY,CAAC,SAAS,CAAC,CAAC,CAAC;IACvD,CAAC;IAFe,wBAAG,MAElB,CAAA;IAED,SAAgB,YAAY,CAAC,SAAoB,EAAE,KAA0B;QACzE,IAAM,KAAK,GAAG,MAAM,CAAC,SAAS,EAAE,KAAK,CAAC,CAAC;QACvC,OAAO,EAAE,KAAK,OAAA,EAAE,SAAS,EAAE,GAAG,CAAC,KAAK,EAAE,SAAS,CAAC,EAAE,CAAC;IACvD,CAAC;IAHe,iCAAY,eAG3B,CAAA;IAED,SAAgB,eAAe,CAAC,KAAiB,EAAE,SAAoB;QACnE,KAAK,CAAC,gBAAgB,GAAG,SAAS,CAAC;QACnC,OAAO,KAAK,CAAC,QAAQ,CAAC,IAAI,wBAAY,CAAC,SAAS,CAAC,CAAC,CAAC;IACvD,CAAC;IAHe,oCAAe,kBAG9B,CAAA;IAED,SAAgB,qBAAqB,CAAC,GAA0B,EAAE,SAAc,EAAE,KAAc;QAC5F,IAAM,CAAC,GAAG,8BAAG,CAAC,cAAc,CAAC,SAAS,CAAC,CAAC;QACxC,GAAG,CAAC,KAAK,GAAG,UAAG,KAAK,IAAI,WAAW,CAAE,CAAC;QACtC,GAAG,CAAC,WAAW,GAAG,qBAAS,CAAC,kBAAkB,CAAC,CAAC,CAAC,CAAC;QAClD,GAAG,CAAC,IAAI,GAAG,CAAC,CAAC;IACjB,CAAC;IALe,0CAAqB,wBAKpC,CAAA;AACL,CAAC,EA7CS,oBAAoB,KAApB,oBAAoB,QA6C7B;AA9CQ,oDAAoB"}

package/lib/commonjs/mol-plugin-state/helpers/structure-selection-query.d.ts

@@ -1,5 +1,5 @@
 /**
- * Copyright (c) 2019-2020 mol* contributors, licensed under MIT, See LICENSE file for more info.
+ * Copyright (c) 2019-2021 mol* contributors, licensed under MIT, See LICENSE file for more info.
  *
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
  * @author David Sehnal <david.sehnal@gmail.com>

package/lib/commonjs/mol-plugin-state/helpers/structure-selection-query.js

@@ -1,6 +1,6 @@
 "use strict";
 /**
- * Copyright (c) 2019-2020 mol* contributors, licensed under MIT, See LICENSE file for more info.
+ * Copyright (c) 2019-2021 mol* contributors, licensed under MIT, See LICENSE file for more info.
  *
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
  * @author David Sehnal <david.sehnal@gmail.com>
@@ -15,6 +15,7 @@ var compiler_1 = require("../../mol-script/runtime/query/compiler");
 var set_1 = require("../../mol-util/set");
 var transforms_1 = require("../transforms");
 var types_2 = require("../../mol-model/structure/model/properties/atomic/types");
+var secondary_structure_1 = require("../../mol-model-props/computed/secondary-structure");
 var StructureSelectionCategory;
 (function (StructureSelectionCategory) {
     StructureSelectionCategory["Type"] = "Type";
@@ -226,7 +227,12 @@ var helix = StructureSelectionQuery('Helix', builder_1.MolScriptBuilder.struct.m
             builder_1.MolScriptBuilder.core.type.bitflags([2 /* Helix */])
         ])
     })
-]), { category: StructureSelectionCategory.Structure });
+]), {
+    category: StructureSelectionCategory.Structure,
+    ensureCustomProperties: function (ctx, structure) {
+        return secondary_structure_1.SecondaryStructureProvider.attach(ctx, structure);
+    }
+});
 var beta = StructureSelectionQuery('Beta Strand/Sheet', builder_1.MolScriptBuilder.struct.modifier.union([
     builder_1.MolScriptBuilder.struct.generator.atomGroups({
         'entity-test': _proteinEntityTest,
@@ -235,7 +241,12 @@ var beta = StructureSelectionQuery('Beta Strand/Sheet', builder_1.MolScriptBuild
             builder_1.MolScriptBuilder.core.type.bitflags([4 /* Beta */])
         ])
     })
-]), { category: StructureSelectionCategory.Structure });
+]), {
+    category: StructureSelectionCategory.Structure,
+    ensureCustomProperties: function (ctx, structure) {
+        return secondary_structure_1.SecondaryStructureProvider.attach(ctx, structure);
+    }
+});
 var water = StructureSelectionQuery('Water', builder_1.MolScriptBuilder.struct.modifier.union([
     builder_1.MolScriptBuilder.struct.generator.atomGroups({
         'entity-test': builder_1.MolScriptBuilder.core.rel.eq([builder_1.MolScriptBuilder.ammp('entityType'), 'water'])
@@ -534,8 +545,8 @@ function ResidueQuery(_a, category, priority) {
     var names = _a[0], label = _a[1];
     if (priority === void 0) { priority = 0; }
     var description = names.length === 1 && !StandardResidues.has(names[0])
-        ? "[" + names[0] + "] " + label
-        : label + " (" + names.join(', ') + ")";
+        ? "[".concat(names[0], "] ").concat(label)
+        : "".concat(label, " (").concat(names.join(', '), ")");
     return StructureSelectionQuery(description, builder_1.MolScriptBuilder.struct.modifier.union([
         builder_1.MolScriptBuilder.struct.generator.atomGroups({
             'residue-test': builder_1.MolScriptBuilder.core.set.has([builder_1.MolScriptBuilder.set.apply(builder_1.MolScriptBuilder, names), builder_1.MolScriptBuilder.ammp('auth_comp_id')])
@@ -545,7 +556,7 @@ function ResidueQuery(_a, category, priority) {
 exports.ResidueQuery = ResidueQuery;
 function ElementSymbolQuery(_a, category, priority) {
     var names = _a[0], label = _a[1];
-    var description = label + " (" + names.join(', ') + ")";
+    var description = "".concat(label, " (").concat(names.join(', '), ")");
     return StructureSelectionQuery(description, builder_1.MolScriptBuilder.struct.modifier.union([
         builder_1.MolScriptBuilder.struct.generator.atomGroups({
             'atom-test': builder_1.MolScriptBuilder.core.set.has([builder_1.MolScriptBuilder.set.apply(builder_1.MolScriptBuilder, names), builder_1.MolScriptBuilder.acp('elementSymbol')])
@@ -555,8 +566,8 @@ function ElementSymbolQuery(_a, category, priority) {
 exports.ElementSymbolQuery = ElementSymbolQuery;
 function EntityDescriptionQuery(_a, category, priority) {
     var names = _a[0], label = _a[1];
-    var description = "" + label;
-    return StructureSelectionQuery("" + label, builder_1.MolScriptBuilder.struct.modifier.union([
+    var description = "".concat(label);
+    return StructureSelectionQuery("".concat(label), builder_1.MolScriptBuilder.struct.modifier.union([
         builder_1.MolScriptBuilder.struct.generator.atomGroups({
             'entity-test': builder_1.MolScriptBuilder.core.list.equal([builder_1.MolScriptBuilder.list.apply(builder_1.MolScriptBuilder, names), builder_1.MolScriptBuilder.ammp('entityDescription')])
         })