npm - molstar - Versions diffs - 2.3.3 → 2.3.8 - Mend

molstar 2.3.3 → 2.3.8

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.

Files changed (1829) hide show

package/lib/commonjs/mol-model-formats/shape/ply.d.ts CHANGED Viewed

@@ -12,48 +12,48 @@ import { Mesh } from '../../mol-geo/geometry/mesh/mesh';
 import { ParamDefinition as PD } from '../../mol-util/param-definition';
 export declare const PlyShapeParams: {
     coloring: PD.Mapped<PD.NamedParams<PD.Normalize<{
+        color: Color;
+    }>, "uniform"> | PD.NamedParams<PD.Normalize<{
         red: string;
         green: string;
         blue: string;
     }>, "material"> | PD.NamedParams<PD.Normalize<{
-        color: Color;
-    }>, "uniform"> | PD.NamedParams<PD.Normalize<{
         red: string;
         green: string;
         blue: string;
     }>, "vertex">>;
-    grouping: PD.Mapped<PD.NamedParams<PD.Normalize<{
+    grouping: PD.Mapped<PD.NamedParams<PD.Normalize<unknown>, "none"> | PD.NamedParams<PD.Normalize<{
         group: string;
-    }>, "vertex"> | PD.NamedParams<PD.Normalize<unknown>, "none">>;
+    }>, "vertex">>;
     doubleSided: PD.BooleanParam;
     flipSided: PD.BooleanParam;
     flatShaded: PD.BooleanParam;
     ignoreLight: PD.BooleanParam;
     xrayShaded: PD.BooleanParam;
     alpha: PD.Numeric;
-    quality: PD.Select<"custom" | "auto" | "highest" | "higher" | "high" | "medium" | "low" | "lower" | "lowest">;
+    quality: PD.Select<"auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest">;
 };
 export declare type PlyShapeParams = typeof PlyShapeParams;
 export declare function shapeFromPly(source: PlyFile, params?: {}): Task<ShapeProvider<PlyFile, Mesh, {
     coloring: PD.Mapped<PD.NamedParams<PD.Normalize<{
+        color: Color;
+    }>, "uniform"> | PD.NamedParams<PD.Normalize<{
         red: string;
         green: string;
         blue: string;
     }>, "material"> | PD.NamedParams<PD.Normalize<{
-        color: Color;
-    }>, "uniform"> | PD.NamedParams<PD.Normalize<{
         red: string;
         green: string;
         blue: string;
     }>, "vertex">>;
-    grouping: PD.Mapped<PD.NamedParams<PD.Normalize<{
+    grouping: PD.Mapped<PD.NamedParams<PD.Normalize<unknown>, "none"> | PD.NamedParams<PD.Normalize<{
         group: string;
-    }>, "vertex"> | PD.NamedParams<PD.Normalize<unknown>, "none">>;
+    }>, "vertex">>;
     doubleSided: PD.BooleanParam;
     flipSided: PD.BooleanParam;
     flatShaded: PD.BooleanParam;
     ignoreLight: PD.BooleanParam;
     xrayShaded: PD.BooleanParam;
     alpha: PD.Numeric;
-    quality: PD.Select<"custom" | "auto" | "highest" | "higher" | "high" | "medium" | "low" | "lower" | "lowest">;
+    quality: PD.Select<"auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest">;
 }>>;

package/lib/commonjs/mol-model-formats/shape/ply.js CHANGED Viewed

@@ -220,7 +220,7 @@ function createShape(plyFile, mesh, coloring, grouping) {
         return color_1.Color.fromRgb(red.value(idx), green.value(idx), blue.value(idx));
     }, function () { return 1; }, // size: constant
     function (groupId) {
-        return label + " " + ids[groupId];
+        return "".concat(label, " ").concat(ids[groupId]);
     });
 }
 function makeShapeGetter() {

package/lib/commonjs/mol-model-formats/shape/ply.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- 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package/lib/commonjs/mol-model-formats/structure/basic/atomic.js CHANGED Viewed

@@ -122,9 +122,9 @@ function createChainOperatorMappingAndSubstituteNames(hierarchy, format) {
         });
         var suffix = entries.suffix.value(i);
         var label = entries.label_asym_id.value(i);
-        labelMap.set("" + label + suffix, { name: label, operator: operator });
+        labelMap.set("".concat(label).concat(suffix), { name: label, operator: operator });
         var auth = entries.auth_asym_id.value(i);
-        authMap.set("" + auth + suffix, auth);
+        authMap.set("".concat(auth).concat(suffix), auth);
     }
     var _a = hierarchy.chains, label_asym_id = _a.label_asym_id, auth_asym_id = _a.auth_asym_id;
     var mappedLabel = new Array(label_asym_id.rowCount);

package/lib/commonjs/mol-model-formats/structure/basic/atomic.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- 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package/lib/commonjs/mol-model-formats/structure/basic/properties.js CHANGED Viewed

@@ -14,7 +14,7 @@ var db_1 = require("../../../mol-data/db");
 function getMissingResidues(data) {
     var map = new Map();
     var getKey = function (model_num, asym_id, seq_id) {
-        return model_num + "|" + asym_id + "|" + seq_id;
+        return "".concat(model_num, "|").concat(asym_id, "|").concat(seq_id);
     };
     var c = data.pdbx_unobs_or_zero_occ_residues;
     for (var i = 0, il = c._rowCount; i < il; ++i) {
@@ -64,7 +64,7 @@ function getSaccharideComponentMap(data) {
                     map.set(comp_id.value(i), saccharideComp);
                 }
                 else {
-                    console.warn("Unknown SNFG name '" + snfgName + "'");
+                    console.warn("Unknown SNFG name '".concat(snfgName, "'"));
                 }
             }
         }

package/lib/commonjs/mol-model-formats/structure/basic/properties.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- 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1	+ 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package/lib/commonjs/mol-model-formats/structure/basic/schema.d.ts CHANGED Viewed

@@ -60,7 +60,7 @@ export declare const BasicSchema: {
         formula_weight: import("../../../mol-data/db/column").Column.Schema.Float;
         id: import("../../../mol-data/db/column").Column.Schema.Str;
         src_method: import("../../../mol-data/db/column").Column.Schema.Aliased<"nat" | "man" | "syn">;
-        type: import("../../../mol-data/db/column").Column.Schema.Aliased<"polymer" | "water" | "branched" | "non-polymer" | "macrolide">;
+        type: import("../../../mol-data/db/column").Column.Schema.Aliased<"non-polymer" | "polymer" | "macrolide" | "water" | "branched">;
         pdbx_description: import("../../../mol-data/db/column").Column.Schema.List<string>;
         pdbx_number_of_molecules: import("../../../mol-data/db/column").Column.Schema.Int;
         pdbx_mutation: import("../../../mol-data/db/column").Column.Schema.Str;
@@ -69,8 +69,8 @@ export declare const BasicSchema: {
     };
     entity_poly: {
         entity_id: import("../../../mol-data/db/column").Column.Schema.Str;
-        nstd_linkage: import("../../../mol-data/db/column").Column.Schema.Aliased<"y" | "no" | "n" | "yes">;
-        nstd_monomer: import("../../../mol-data/db/column").Column.Schema.Aliased<"y" | "no" | "n" | "yes">;
+        nstd_linkage: import("../../../mol-data/db/column").Column.Schema.Aliased<"y" | "yes" | "no" | "n">;
+        nstd_monomer: import("../../../mol-data/db/column").Column.Schema.Aliased<"y" | "yes" | "no" | "n">;
         type: import("../../../mol-data/db/column").Column.Schema.Aliased<"other" | "polypeptide(D)" | "polypeptide(L)" | "polydeoxyribonucleotide" | "polyribonucleotide" | "polydeoxyribonucleotide/polyribonucleotide hybrid" | "cyclic-pseudo-peptide" | "peptide nucleic acid">;
         pdbx_strand_id: import("../../../mol-data/db/column").Column.Schema.List<string>;
         pdbx_seq_one_letter_code: import("../../../mol-data/db/column").Column.Schema.Str;
@@ -79,7 +79,7 @@ export declare const BasicSchema: {
     };
     entity_poly_seq: {
         entity_id: import("../../../mol-data/db/column").Column.Schema.Str;
-        hetero: import("../../../mol-data/db/column").Column.Schema.Aliased<"y" | "no" | "n" | "yes">;
+        hetero: import("../../../mol-data/db/column").Column.Schema.Aliased<"y" | "yes" | "no" | "n">;
         mon_id: import("../../../mol-data/db/column").Column.Schema.Str;
         num: import("../../../mol-data/db/column").Column.Schema.Int;
     };
@@ -88,11 +88,11 @@ export declare const BasicSchema: {
         type: import("../../../mol-data/db/column").Column.Schema.Aliased<"oligosaccharide">;
     };
     chem_comp: {
-        type: import("../../../mol-data/db/column").Column.Schema.Aliased<"non-polymer" | "other" | "D-peptide linking" | "L-peptide linking" | "D-peptide NH3 amino terminus" | "L-peptide NH3 amino terminus" | "D-peptide COOH carboxy terminus" | "L-peptide COOH carboxy terminus" | "DNA linking" | "RNA linking" | "L-RNA linking" | "L-DNA linking" | "DNA OH 5 prime terminus" | "RNA OH 5 prime terminus" | "DNA OH 3 prime terminus" | "RNA OH 3 prime terminus" | "D-saccharide, beta linking" | "D-saccharide, alpha linking" | "L-saccharide, beta linking" | "L-saccharide, alpha linking" | "L-saccharide" | "D-saccharide" | "saccharide" | "peptide linking" | "peptide-like" | "L-gamma-peptide, C-delta linking" | "D-gamma-peptide, C-delta linking" | "L-beta-peptide, C-gamma linking" | "D-beta-peptide, C-gamma linking" | "Ion" | "Lipid">;
+        type: import("../../../mol-data/db/column").Column.Schema.Aliased<"other" | "D-peptide linking" | "L-peptide linking" | "D-peptide NH3 amino terminus" | "L-peptide NH3 amino terminus" | "D-peptide COOH carboxy terminus" | "L-peptide COOH carboxy terminus" | "DNA linking" | "RNA linking" | "L-RNA linking" | "L-DNA linking" | "DNA OH 5 prime terminus" | "RNA OH 5 prime terminus" | "DNA OH 3 prime terminus" | "RNA OH 3 prime terminus" | "D-saccharide, beta linking" | "D-saccharide, alpha linking" | "L-saccharide, beta linking" | "L-saccharide, alpha linking" | "L-saccharide" | "D-saccharide" | "saccharide" | "non-polymer" | "peptide linking" | "peptide-like" | "L-gamma-peptide, C-delta linking" | "D-gamma-peptide, C-delta linking" | "L-beta-peptide, C-gamma linking" | "D-beta-peptide, C-gamma linking" | "Ion" | "Lipid">;
         formula: import("../../../mol-data/db/column").Column.Schema.Str;
         formula_weight: import("../../../mol-data/db/column").Column.Schema.Float;
         id: import("../../../mol-data/db/column").Column.Schema.Str;
-        mon_nstd_flag: import("../../../mol-data/db/column").Column.Schema.Aliased<"y" | "no" | "n" | "yes">;
+        mon_nstd_flag: import("../../../mol-data/db/column").Column.Schema.Aliased<"y" | "yes" | "no" | "n">;
         name: import("../../../mol-data/db/column").Column.Schema.Str;
         pdbx_synonyms: import("../../../mol-data/db/column").Column.Schema.List<string>;
     };
@@ -156,7 +156,7 @@ export declare const BasicSchema: {
     pdbx_unobs_or_zero_occ_residues: {
         id: import("../../../mol-data/db/column").Column.Schema.Int;
         polymer_flag: import("../../../mol-data/db/column").Column.Schema.Aliased<"N" | "Y">;
-        occupancy_flag: import("../../../mol-data/db/column").Column.Schema.Aliased<"0" | "1">;
+        occupancy_flag: import("../../../mol-data/db/column").Column.Schema.Aliased<"1" | "0">;
         PDB_model_num: import("../../../mol-data/db/column").Column.Schema.Int;
         auth_asym_id: import("../../../mol-data/db/column").Column.Schema.Str;
         auth_comp_id: import("../../../mol-data/db/column").Column.Schema.Str;

package/lib/commonjs/mol-model-formats/structure/common/component.d.ts CHANGED Viewed

@@ -19,29 +19,29 @@ export declare class ComponentBuilder {
     private getType;
     has(compId: string): boolean;
     get(compId: string): Table.Row<Pick<{
-        type: Column.Schema.Aliased<"non-polymer" | "other" | "D-peptide linking" | "L-peptide linking" | "D-peptide NH3 amino terminus" | "L-peptide NH3 amino terminus" | "D-peptide COOH carboxy terminus" | "L-peptide COOH carboxy terminus" | "DNA linking" | "RNA linking" | "L-RNA linking" | "L-DNA linking" | "DNA OH 5 prime terminus" | "RNA OH 5 prime terminus" | "DNA OH 3 prime terminus" | "RNA OH 3 prime terminus" | "D-saccharide, beta linking" | "D-saccharide, alpha linking" | "L-saccharide, beta linking" | "L-saccharide, alpha linking" | "L-saccharide" | "D-saccharide" | "saccharide" | "peptide linking" | "peptide-like" | "L-gamma-peptide, C-delta linking" | "D-gamma-peptide, C-delta linking" | "L-beta-peptide, C-gamma linking" | "D-beta-peptide, C-gamma linking" | "Ion" | "Lipid">;
+        type: Column.Schema.Aliased<"other" | "D-peptide linking" | "L-peptide linking" | "D-peptide NH3 amino terminus" | "L-peptide NH3 amino terminus" | "D-peptide COOH carboxy terminus" | "L-peptide COOH carboxy terminus" | "DNA linking" | "RNA linking" | "L-RNA linking" | "L-DNA linking" | "DNA OH 5 prime terminus" | "RNA OH 5 prime terminus" | "DNA OH 3 prime terminus" | "RNA OH 3 prime terminus" | "D-saccharide, beta linking" | "D-saccharide, alpha linking" | "L-saccharide, beta linking" | "L-saccharide, alpha linking" | "L-saccharide" | "D-saccharide" | "saccharide" | "non-polymer" | "peptide linking" | "peptide-like" | "L-gamma-peptide, C-delta linking" | "D-gamma-peptide, C-delta linking" | "L-beta-peptide, C-gamma linking" | "D-beta-peptide, C-gamma linking" | "Ion" | "Lipid">;
         formula: Column.Schema.Str;
         formula_weight: Column.Schema.Float;
         id: Column.Schema.Str;
-        mon_nstd_flag: Column.Schema.Aliased<"y" | "no" | "n" | "yes">;
+        mon_nstd_flag: Column.Schema.Aliased<"y" | "yes" | "no" | "n">;
         name: Column.Schema.Str;
         pdbx_synonyms: Column.Schema.List<string>;
-    }, "type" | "name" | "id">> | undefined;
+    }, "name" | "id" | "type">> | undefined;
     add(compId: string, index: number): Table.Row<Pick<{
-        type: Column.Schema.Aliased<"non-polymer" | "other" | "D-peptide linking" | "L-peptide linking" | "D-peptide NH3 amino terminus" | "L-peptide NH3 amino terminus" | "D-peptide COOH carboxy terminus" | "L-peptide COOH carboxy terminus" | "DNA linking" | "RNA linking" | "L-RNA linking" | "L-DNA linking" | "DNA OH 5 prime terminus" | "RNA OH 5 prime terminus" | "DNA OH 3 prime terminus" | "RNA OH 3 prime terminus" | "D-saccharide, beta linking" | "D-saccharide, alpha linking" | "L-saccharide, beta linking" | "L-saccharide, alpha linking" | "L-saccharide" | "D-saccharide" | "saccharide" | "peptide linking" | "peptide-like" | "L-gamma-peptide, C-delta linking" | "D-gamma-peptide, C-delta linking" | "L-beta-peptide, C-gamma linking" | "D-beta-peptide, C-gamma linking" | "Ion" | "Lipid">;
+        type: Column.Schema.Aliased<"other" | "D-peptide linking" | "L-peptide linking" | "D-peptide NH3 amino terminus" | "L-peptide NH3 amino terminus" | "D-peptide COOH carboxy terminus" | "L-peptide COOH carboxy terminus" | "DNA linking" | "RNA linking" | "L-RNA linking" | "L-DNA linking" | "DNA OH 5 prime terminus" | "RNA OH 5 prime terminus" | "DNA OH 3 prime terminus" | "RNA OH 3 prime terminus" | "D-saccharide, beta linking" | "D-saccharide, alpha linking" | "L-saccharide, beta linking" | "L-saccharide, alpha linking" | "L-saccharide" | "D-saccharide" | "saccharide" | "non-polymer" | "peptide linking" | "peptide-like" | "L-gamma-peptide, C-delta linking" | "D-gamma-peptide, C-delta linking" | "L-beta-peptide, C-gamma linking" | "D-beta-peptide, C-gamma linking" | "Ion" | "Lipid">;
         formula: Column.Schema.Str;
         formula_weight: Column.Schema.Float;
         id: Column.Schema.Str;
-        mon_nstd_flag: Column.Schema.Aliased<"y" | "no" | "n" | "yes">;
+        mon_nstd_flag: Column.Schema.Aliased<"y" | "yes" | "no" | "n">;
         name: Column.Schema.Str;
         pdbx_synonyms: Column.Schema.List<string>;
-    }, "type" | "name" | "id">>;
+    }, "name" | "id" | "type">>;
     getChemCompTable(): Table<{
-        type: Column.Schema.Aliased<"non-polymer" | "other" | "D-peptide linking" | "L-peptide linking" | "D-peptide NH3 amino terminus" | "L-peptide NH3 amino terminus" | "D-peptide COOH carboxy terminus" | "L-peptide COOH carboxy terminus" | "DNA linking" | "RNA linking" | "L-RNA linking" | "L-DNA linking" | "DNA OH 5 prime terminus" | "RNA OH 5 prime terminus" | "DNA OH 3 prime terminus" | "RNA OH 3 prime terminus" | "D-saccharide, beta linking" | "D-saccharide, alpha linking" | "L-saccharide, beta linking" | "L-saccharide, alpha linking" | "L-saccharide" | "D-saccharide" | "saccharide" | "peptide linking" | "peptide-like" | "L-gamma-peptide, C-delta linking" | "D-gamma-peptide, C-delta linking" | "L-beta-peptide, C-gamma linking" | "D-beta-peptide, C-gamma linking" | "Ion" | "Lipid">;
+        type: Column.Schema.Aliased<"other" | "D-peptide linking" | "L-peptide linking" | "D-peptide NH3 amino terminus" | "L-peptide NH3 amino terminus" | "D-peptide COOH carboxy terminus" | "L-peptide COOH carboxy terminus" | "DNA linking" | "RNA linking" | "L-RNA linking" | "L-DNA linking" | "DNA OH 5 prime terminus" | "RNA OH 5 prime terminus" | "DNA OH 3 prime terminus" | "RNA OH 3 prime terminus" | "D-saccharide, beta linking" | "D-saccharide, alpha linking" | "L-saccharide, beta linking" | "L-saccharide, alpha linking" | "L-saccharide" | "D-saccharide" | "saccharide" | "non-polymer" | "peptide linking" | "peptide-like" | "L-gamma-peptide, C-delta linking" | "D-gamma-peptide, C-delta linking" | "L-beta-peptide, C-gamma linking" | "D-beta-peptide, C-gamma linking" | "Ion" | "Lipid">;
         formula: Column.Schema.Str;
         formula_weight: Column.Schema.Float;
         id: Column.Schema.Str;
-        mon_nstd_flag: Column.Schema.Aliased<"y" | "no" | "n" | "yes">;
+        mon_nstd_flag: Column.Schema.Aliased<"y" | "yes" | "no" | "n">;
         name: Column.Schema.Str;
         pdbx_synonyms: Column.Schema.List<string>;
     }>;

package/lib/commonjs/mol-model-formats/structure/common/entity.d.ts CHANGED Viewed

@@ -28,7 +28,7 @@ export declare class EntityBuilder {
         formula_weight: Column.Schema.Float;
         id: Column.Schema.Str;
         src_method: Column.Schema.Aliased<"nat" | "man" | "syn">;
-        type: Column.Schema.Aliased<"polymer" | "water" | "branched" | "non-polymer" | "macrolide">;
+        type: Column.Schema.Aliased<"non-polymer" | "polymer" | "macrolide" | "water" | "branched">;
         pdbx_description: Column.Schema.List<string>;
         pdbx_number_of_molecules: Column.Schema.Int;
         pdbx_mutation: Column.Schema.Str;

package/lib/commonjs/mol-model-formats/structure/common/entity.js CHANGED Viewed

@@ -22,7 +22,7 @@ var EntityBuilder = /** @class */ (function () {
     }
     EntityBuilder.prototype.set = function (type, description) {
         this.count += 1;
-        this.ids.push("" + this.count);
+        this.ids.push("".concat(this.count));
         this.types.push(type);
         this.descriptions.push([description]);
     };
@@ -30,7 +30,7 @@ var EntityBuilder = /** @class */ (function () {
         if (moleculeType === 2 /* Water */) {
             if (this.waterId === undefined) {
                 this.set('water', (options === null || options === void 0 ? void 0 : options.customName) || 'Water');
-                this.waterId = "" + this.count;
+                this.waterId = "".concat(this.count);
             }
             return this.waterId;
         }
@@ -40,8 +40,8 @@ var EntityBuilder = /** @class */ (function () {
             }
             else {
                 if (!this.chainMap.has(chainId)) {
-                    this.set('polymer', (options === null || options === void 0 ? void 0 : options.customName) || "Polymer " + (this.chainMap.size + 1));
-                    this.chainMap.set(chainId, "" + this.count);
+                    this.set('polymer', (options === null || options === void 0 ? void 0 : options.customName) || "Polymer ".concat(this.chainMap.size + 1));
+                    this.chainMap.set(chainId, "".concat(this.count));
                 }
                 return this.chainMap.get(chainId);
             }
@@ -49,7 +49,7 @@ var EntityBuilder = /** @class */ (function () {
         else {
             if (!this.heteroMap.has(compId)) {
                 this.set('non-polymer', (options === null || options === void 0 ? void 0 : options.customName) || this.namesMap.get(compId) || compId);
-                this.heteroMap.set(compId, "" + this.count);
+                this.heteroMap.set(compId, "".concat(this.count));
             }
             return this.heteroMap.get(compId);
         }
@@ -66,7 +66,7 @@ var EntityBuilder = /** @class */ (function () {
             var _a = compounds[i], chains = _a.chains, description = _a.description;
             this.set('polymer', description);
             for (var j = 0, jl = chains.length; j < jl; ++j) {
-                this.compoundsMap.set(chains[j], "" + this.count);
+                this.compoundsMap.set(chains[j], "".concat(this.count));
             }
         }
     };

package/lib/commonjs/mol-model-formats/structure/common/entity.js.map CHANGED Viewed

	@@ -1 +1 @@
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1	+ {"version":3,"file":"entity.js","sourceRoot":"","sources":["../../../../../src/mol-model-formats/structure/common/entity.ts"],"names":[],"mappings":";AAAA;;;;GAIG;;;AAEH,kEAAmF;AACnF,2CAAqD;AACrD,0CAA8C;AAO9C;IAAA;QACY,UAAK,GAAG,CAAC,CAAA;QACT,QAAG,GAAa,EAAE,CAAA;QAClB,UAAK,GAAiB,EAAE,CAAA;QACxB,iBAAY,GAAe,EAAE,CAAA;QAE7B,iBAAY,GAAG,IAAI,GAAG,EAAkB,CAAA;QACxC,aAAQ,GAAG,IAAI,GAAG,EAAkB,CAAA;QACpC,cAAS,GAAG,IAAI,GAAG,EAAkB,CAAA;QACrC,aAAQ,GAAG,IAAI,GAAG,EAAkB,CAAA;IAyDhD,CAAC;IAtDW,2BAAG,GAAX,UAAY,IAAgB,EAAE,WAAmB;QAC7C,IAAI,CAAC,KAAK,IAAI,CAAC,CAAC;QAChB,IAAI,CAAC,GAAG,CAAC,IAAI,CAAC,UAAG,IAAI,CAAC,KAAK,CAAE,CAAC,CAAC;QAC/B,IAAI,CAAC,KAAK,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC;QACtB,IAAI,CAAC,YAAY,CAAC,IAAI,CAAC,CAAC,WAAW,CAAC,CAAC,CAAC;IAC1C,CAAC;IAED,mCAAW,GAAX,UAAY,MAAc,EAAE,YAA0B,EAAE,OAAe,EAAE,OAAiC;QACtG,IAAI,YAAY,kBAAuB,EAAE;YACrC,IAAI,IAAI,CAAC,OAAO,KAAK,SAAS,EAAE;gBAC5B,IAAI,CAAC,GAAG,CAAC,OAAO,EAAE,CAAA,OAAO,aAAP,OAAO,uBAAP,OAAO,CAAE,UAAU,KAAI,OAAO,CAAC,CAAC;gBAClD,IAAI,CAAC,OAAO,GAAG,UAAG,IAAI,CAAC,KAAK,CAAE,CAAC;aAClC;YACD,OAAO,IAAI,CAAC,OAAO,CAAC;SACvB;aAAM,IAAI,IAAA,iBAAS,EAAC,YAAY,CAAC,EAAE;YAChC,IAAI,IAAI,CAAC,YAAY,CAAC,GAAG,CAAC,OAAO,CAAC,EAAE;gBAChC,OAAO,IAAI,CAAC,YAAY,CAAC,GAAG,CAAC,OAAO,CAAE,CAAC;aAC1C;iBAAM;gBACH,IAAI,CAAC,IAAI,CAAC,QAAQ,CAAC,GAAG,CAAC,OAAO,CAAC,EAAE;oBAC7B,IAAI,CAAC,GAAG,CAAC,SAAS,EAAE,CAAA,OAAO,aAAP,OAAO,uBAAP,OAAO,CAAE,UAAU,KAAI,kBAAW,IAAI,CAAC,QAAQ,CAAC,IAAI,GAAG,CAAC,CAAE,CAAC,CAAC;oBAChF,IAAI,CAAC,QAAQ,CAAC,GAAG,CAAC,OAAO,EAAE,UAAG,IAAI,CAAC,KAAK,CAAE,CAAC,CAAC;iBAC/C;gBACD,OAAO,IAAI,CAAC,QAAQ,CAAC,GAAG,CAAC,OAAO,CAAE,CAAC;aACtC;SACJ;aAAM;YACH,IAAI,CAAC,IAAI,CAAC,SAAS,CAAC,GAAG,CAAC,MAAM,CAAC,EAAE;gBAC7B,IAAI,CAAC,GAAG,CAAC,aAAa,EAAE,CAAA,OAAO,aAAP,OAAO,uBAAP,OAAO,CAAE,UAAU,KAAI,IAAI,CAAC,QAAQ,CAAC,GAAG,CAAC,MAAM,CAAC,IAAI,MAAM,CAAC,CAAC;gBACpF,IAAI,CAAC,SAAS,CAAC,GAAG,CAAC,MAAM,EAAE,UAAG,IAAI,CAAC,KAAK,CAAE,CAAC,CAAC;aAC/C;YACD,OAAO,IAAI,CAAC,SAAS,CAAC,GAAG,CAAC,MAAM,CAAE,CAAC;SACtC;IACL,CAAC;IAED,sCAAc,GAAd;QACI,OAAO,UAAK,CAAC,gBAAgB,CAAC,oBAAW,CAAC,MAAM,EAAE;YAC9C,EAAE,EAAE,WAAM,CAAC,aAAa,CAAC,IAAI,CAAC,GAAG,CAAC;YAClC,IAAI,EAAE,WAAM,CAAC,kBAAkB,CAAC,IAAI,CAAC,KAAK,CAAC;YAC3C,gBAAgB,EAAE,WAAM,CAAC,iBAAiB,CAAC,IAAI,CAAC,YAAY,CAAC;SAChE,EAAE,IAAI,CAAC,KAAK,CAAC,CAAC;IACnB,CAAC;IAED,oCAAY,GAAZ,UAAa,SAA2B;QACpC,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,EAAE,GAAG,SAAS,CAAC,MAAM,EAAE,CAAC,GAAG,EAAE,EAAE,EAAE,CAAC,EAAE;YAC1C,IAAA,KAA0B,SAAS,CAAC,CAAC,CAAC,EAApC,MAAM,YAAA,EAAE,WAAW,iBAAiB,CAAC;YAC7C,IAAI,CAAC,GAAG,CAAC,SAAS,EAAE,WAAW,CAAC,CAAC;YACjC,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,EAAE,GAAG,MAAM,CAAC,MAAM,EAAE,CAAC,GAAG,EAAE,EAAE,EAAE,CAAC,EAAE;gBAC7C,IAAI,CAAC,YAAY,CAAC,GAAG,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,UAAG,IAAI,CAAC,KAAK,CAAE,CAAC,CAAC;aACrD;SACJ;IACL,CAAC;IAED,gCAAQ,GAAR,UAAS,KAAyB;QAAlC,iBAEC;QADG,KAAK,CAAC,OAAO,CAAC,UAAA,CAAC,IAAI,OAAA,KAAI,CAAC,QAAQ,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,EAA7B,CAA6B,CAAC,CAAC;IACtD,CAAC;IACL,oBAAC;AAAD,CAAC,AAlED,IAkEC;AAlEY,sCAAa"}

package/lib/commonjs/mol-model-formats/structure/pdb/assembly.js CHANGED Viewed

@@ -54,7 +54,7 @@ function parseRemark350(lines, lineStart, lineEnd) {
         var line = getLine(i);
         if (line.substr(11, 12) === 'BIOMOLECULE:') {
             var id = line.substr(23).trim();
-            var details = "Biomolecule " + id;
+            var details = "Biomolecule ".concat(id);
             line = getLine(i + 1);
             if (line.substr(11, 30) !== 'APPLY THE FOLLOWING TO CHAINS:') {
                 i++;
@@ -90,7 +90,7 @@ function parseRemark350(lines, lineStart, lineEnd) {
         }
         else if (line.substr(11, 33) === 'APPLYING THE FOLLOWING TO CHAINS:') {
             // variant in older PDB format version
-            current = PdbAssembly("" + asmId, "Biomolecule " + asmId);
+            current = PdbAssembly("".concat(asmId), "Biomolecule ".concat(asmId));
             assemblies.push(current);
             asmId += 1;
             group = { chains: [], operators: [] };
@@ -147,9 +147,9 @@ function parseRemark350(lines, lineStart, lineEnd) {
                 };
                 for (var i = 0; i < 3; i++) {
                     for (var j = 0; j < 3; j++) {
-                        row["matrix[" + (i + 1) + "][" + (j + 1) + "]"] = '' + linear_algebra_1.Mat4.getValue(oper.matrix, i, j);
+                        row["matrix[".concat(i + 1, "][").concat(j + 1, "]")] = '' + linear_algebra_1.Mat4.getValue(oper.matrix, i, j);
                     }
-                    row["vector[" + (i + 1) + "]"] = '' + linear_algebra_1.Mat4.getValue(oper.matrix, i, 3);
+                    row["vector[".concat(i + 1, "]")] = '' + linear_algebra_1.Mat4.getValue(oper.matrix, i, 3);
                 }
                 pdbx_struct_oper_list_rows.push(row);
             }
@@ -163,13 +163,13 @@ function parseRemark350(lines, lineStart, lineEnd) {
     };
     var _loop_1 = function (i) {
         var _loop_2 = function (j) {
-            var k_1 = "matrix[" + (i + 1) + "][" + (j + 1) + "]";
+            var k_1 = "matrix[".concat(i + 1, "][").concat(j + 1, "]");
             pdbx_struct_oper_list[k_1] = cif_1.CifField.ofStrings(pdbx_struct_oper_list_rows.map(function (r) { return r[k_1]; }));
         };
         for (var j = 0; j < 3; j++) {
             _loop_2(j);
         }
-        var k = "vector[" + (i + 1) + "]";
+        var k = "vector[".concat(i + 1, "]");
         pdbx_struct_oper_list[k] = cif_1.CifField.ofStrings(pdbx_struct_oper_list_rows.map(function (r) { return r[k]; }));
     };
     for (var i = 0; i < 3; i++) {
@@ -212,9 +212,9 @@ function parseMtrix(lines, lineStart, lineEnd) {
         };
         for (var i = 0; i < 3; i++) {
             for (var j = 0; j < 3; j++) {
-                row["matrix[" + (i + 1) + "][" + (j + 1) + "]"] = '' + linear_algebra_1.Mat4.getValue(oper, i, j);
+                row["matrix[".concat(i + 1, "][").concat(j + 1, "]")] = '' + linear_algebra_1.Mat4.getValue(oper, i, j);
             }
-            row["vector[" + (i + 1) + "]"] = '' + linear_algebra_1.Mat4.getValue(oper, i, 3);
+            row["vector[".concat(i + 1, "]")] = '' + linear_algebra_1.Mat4.getValue(oper, i, 3);
         }
         struct_ncs_oper_rows.push(row);
     }
@@ -225,13 +225,13 @@ function parseMtrix(lines, lineStart, lineEnd) {
     };
     var _loop_3 = function (i) {
         var _loop_4 = function (j) {
-            var k_2 = "matrix[" + (i + 1) + "][" + (j + 1) + "]";
+            var k_2 = "matrix[".concat(i + 1, "][").concat(j + 1, "]");
             struct_ncs_oper[k_2] = cif_1.CifField.ofStrings(struct_ncs_oper_rows.map(function (r) { return r[k_2]; }));
         };
         for (var j = 0; j < 3; j++) {
             _loop_4(j);
         }
-        var k = "vector[" + (i + 1) + "]";
+        var k = "vector[".concat(i + 1, "]");
         struct_ncs_oper[k] = cif_1.CifField.ofStrings(struct_ncs_oper_rows.map(function (r) { return r[k]; }));
     };
     for (var i = 0; i < 3; i++) {

package/lib/commonjs/mol-model-formats/structure/pdb/assembly.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- 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package/lib/commonjs/mol-model-formats/structure/pdb/conect.js CHANGED Viewed

@@ -44,7 +44,7 @@ function parseConect(lines, lineStart, lineEnd, sites) {
             // as double/triple bonds, e.g. CONECT 1529 1528 1528 is a double bond
             if (bondIndex[idxB] !== undefined)
                 continue;
-            id.push("covale" + k);
+            id.push("covale".concat(k));
             conn_type_id.push('covale');
             ptnr1_label_asym_id.push(sites.label_asym_id.str(idxA));
             ptnr1_auth_seq_id.push(sites.auth_seq_id.int(idxA));

package/lib/commonjs/mol-model-formats/structure/pdb/conect.js.map CHANGED Viewed

	@@ -1 +1 @@
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