npm - molstar - Versions diffs - 2.3.7 → 2.4.1 - Mend

molstar 2.3.7 → 2.4.1

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 (1699) hide show

package/lib/extensions/mp4-export/ui.js CHANGED Viewed

@@ -21,19 +21,20 @@ var Mp4EncoderUI = /** @class */ (function (_super) {
             download(new Blob([_this.state.data.movie]), _this.state.data.filename);
         };
         _this.generate = function () { return __awaiter(_this, void 0, void 0, function () {
-            var data, _a;
-            return __generator(this, function (_b) {
-                switch (_b.label) {
+            var data, e_1;
+            return __generator(this, function (_a) {
+                switch (_a.label) {
                     case 0:
-                        _b.trys.push([0, 2, , 3]);
+                        _a.trys.push([0, 2, , 3]);
                         this.setState({ busy: true });
                         return [4 /*yield*/, this.controls.render()];
                     case 1:
-                        data = _b.sent();
+                        data = _a.sent();
                         this.setState({ busy: false, data: data });
                         return [3 /*break*/, 3];
                     case 2:
-                        _a = _b.sent();
+                        e_1 = _a.sent();
+                        console.error(e_1);
                         this.setState({ busy: false });
                         return [3 /*break*/, 3];
                     case 3: return [2 /*return*/];

package/lib/extensions/mp4-export/ui.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- {"version":3,"file":"ui.js","sourceRoot":"","sources":["../../../src/extensions/mp4-export/ui.tsx"],"names":[],"mappings":";;AAAA;;;;GAIG;AAEH,OAAO,EAAE,KAAK,EAAE,MAAM,MAAM,CAAC;AAC7B,OAAO,EAAE,YAAY,EAAE,MAAM,gBAAgB,CAAC;AAC9C,OAAO,EAAE,mBAAmB,EAAoB,MAAM,0BAA0B,CAAC;AACjF,OAAO,EAAE,MAAM,EAAE,MAAM,qCAAqC,CAAC;AAC7D,OAAO,EAAE,iBAAiB,EAAE,SAAS,EAAE,IAAI,EAAE,wBAAwB,EAAE,MAAM,oCAAoC,CAAC;AAClH,OAAO,EAAE,iBAAiB,EAAE,MAAM,yCAAyC,CAAC;AAC5E,OAAO,EAAE,QAAQ,EAAE,MAAM,yBAAyB,CAAC;AACnD,OAAO,EAAE,kBAAkB,EAAE,WAAW,EAAE,MAAM,YAAY,CAAC;AAO7D;IAAkC,gCAA8B;IAAhE;QAAA,~~qEAqGC~~;~~QAbG~~,UAAI,GAAG;YACH,QAAQ,CAAC,IAAI,IAAI,CAAC,CAAC,KAAI,CAAC,KAAK,CAAC,IAAK,CAAC,KAAK,CAAC,CAAC,EAAE,KAAI,CAAC,KAAK,CAAC,IAAK,CAAC,QAAQ,CAAC,CAAC;QAC5E,CAAC,CAAA;QAED,cAAQ,GAAG;;;;;;wBAEH,IAAI,CAAC,QAAQ,CAAC,EAAE,IAAI,EAAE,IAAI,EAAE,CAAC,CAAC;wBACjB,qBAAM,IAAI,CAAC,QAAQ,CAAC,MAAM,EAAE,EAAA;;wBAAnC,IAAI,GAAG,SAA4B;wBACzC,IAAI,CAAC,QAAQ,CAAC,EAAE,IAAI,EAAE,KAAK,EAAE,IAAI,MAAA,EAAE,CAAC,CAAC;;;;wBAErC,IAAI,CAAC,QAAQ,CAAC,EAAE,IAAI,EAAE,KAAK,EAAE,CAAC,CAAC;;;;;aAEtC,CAAA;;IACL,CAAC;~~IAlGG~~,sBAAI,kCAAQ;aAAZ;YACI,OAAO,IAAI,CAAC,SAAS,IAAI,CAAC,IAAI,CAAC,SAAS,GAAG,IAAI,WAAW,CAAC,IAAI,CAAC,MAAM,CAAC,CAAC,CAAC;QAC7E,CAAC;;;OAAA;IAES,mCAAY,GAAtB;QACI,OAAO;YACH,MAAM,EAAE,kBAAkB;YAC1B,WAAW,EAAE,IAAI;YACjB,KAAK,EAAE,EAAE,MAAM,EAAE,MAAM,EAAE,GAAG,EAAE,wBAAwB,EAAE;SAC3D,CAAC;IACN,CAAC;IAEO,uCAAgB,GAAxB;QAAA,iBAUC;QATG,OAAO,8BACH,uBAAK,SAAS,EAAC,kCAAkC,gBAC7C,uBAAK,SAAS,EAAC,sBAAsB,EAAC,KAAK,EAAE,EAAE,SAAS,EAAE,QAAQ,EAAE,mDAE9D,YACJ,EACN,KAAC,MAAM,aAAC,IAAI,EAAE,SAAS,EAAE,OAAO,EAAE,IAAI,CAAC,IAAI,EAAE,KAAK,EAAE,EAAE,SAAS,EAAE,CAAC,EAAE,4CAAyB,EAC7F,KAAC,MAAM,aAAC,OAAO,EAAE,cAAM,OAAA,KAAI,CAAC,QAAQ,CAAC,EAAE,IAAI,EAAE,KAAK,CAAC,EAAE,CAAC,EAA/B,CAA+B,EAAE,KAAK,EAAE,EAAE,SAAS,EAAE,CAAC,EAAE,mCAAgB,YAChG,CAAC;IACR,CAAC;IAES,qCAAc,GAAxB;;QACI,IAAI,IAAI,CAAC,KAAK,CAAC,IAAI,EAAE;YACjB,OAAO,IAAI,CAAC,gBAAgB,EAAE,CAAC;SAClC;QAED,IAAM,IAAI,GAAG,IAAI,CAAC,QAAQ,CAAC;QAC3B,IAAM,OAAO,GAAG,IAAI,CAAC,SAAS,CAAC,OAAO,CAAC,KAAK,CAAC;QAC7C,IAAM,IAAI,GAAG,IAAI,CAAC,SAAS,CAAC,IAAI,CAAC,KAAK,CAAC;QACvC,IAAM,QAAQ,GAAG,IAAI,CAAC,SAAS,CAAC,QAAQ,CAAC,KAAK,CAAC;QAC/C,OAAO,8BACH,KAAC,iBAAiB,IACd,MAAM,EAAE,IAAI,CAAC,SAAS,CAAC,UAAU,CAAC,KAAK,EACvC,MAAM,EAAE,EAAE,OAAO,EAAE,OAAO,aAAP,OAAO,uBAAP,OAAO,CAAE,IAAI,CAAC,IAAI,EAAE,EACvC,cAAc,EAAE,UAAA,EAAE,IAAI,OAAA,IAAI,CAAC,UAAU,CAAC,EAAE,CAAC,OAAO,CAAC,EAA3B,CAA2B,EACjD,UAAU,EAAE,IAAI,CAAC,KAAK,CAAC,IAAI,WAC7B,EACD,OAAO,IAAI,KAAC,iBAAiB,IAC1B,MAAM,EAAE,OAAO,CAAC,MAAM,EACtB,MAAM,EAAE,OAAO,CAAC,MAAM,EACtB,cAAc,EAAE,UAAA,EAAE,IAAI,OAAA,IAAI,CAAC,gBAAgB,CAAC,EAAE,CAAC,EAAzB,CAAyB,EAC/C,UAAU,EAAE,IAAI,CAAC,KAAK,CAAC,IAAI,WAC7B,EACF,uBAAK,SAAS,EAAC,kCAAkC,gBAC7C,wBAAK,SAAS,EAAC,sBAAsB,EAAC,KAAK,EAAE,EAAE,SAAS,EAAE,QAAQ,EAAE,iCACnD,IAAI,CAAC,KAAK,OAAG,IAAI,CAAC,MAAM,EAAC,sBAAM,+BACnB,KAAC,IAAI,IAAC,GAAG,EAAE,iBAAiB,EAAE,MAAM,iBAAG,aAC9D,YACJ,EACN,KAAC,iBAAiB,IACd,MAAM,EAAE,kBAAkB,EAC1B,MAAM,EAAE,IAAI,CAAC,SAAS,CAAC,MAAM,CAAC,KAAK,EACnC,cAAc,EAAE,UAAA,EAAE,IAAI,OAAA,IAAI,CAAC,SAAS,CAAC,MAAM,CAAC,IAAI,CAAC,EAAE,CAAC,EAA9B,CAA8B,EACpD,UAAU,EAAE,IAAI,CAAC,KAAK,CAAC,IAAI,WAC7B,EACF,KAAC,MAAM,aAAC,OAAO,EAAE,IAAI,CAAC,QAAQ,EAAE,KAAK,EAAE,EAAE,SAAS,EAAE,CAAC,EAAE,EACnD,QAAQ,EAAE,IAAI,CAAC,KAAK,CAAC,IAAI,IAAI,CAAC,QAAQ,CAAC,QAAQ,EAC/C,MAAM,EAAE,QAAQ,CAAC,QAAQ,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,KAAK,gBACvC,QAAQ,CAAC,QAAQ,CAAC,CAAC,CAAC,QAAQ,CAAC,CAAC,CAAC,MAAA,QAAQ,CAAC,MAAM,mCAAI,sBAAsB,YACpE,YACV,CAAC;IACR,CAAC;IAED,wCAAiB,GAAjB;QAAA,iBAYC;QAXG,IAAM,MAAM,GAAG,KAAK,CAChB,IAAI,CAAC,QAAQ,CAAC,SAAS,CAAC,UAAU,EAClC,IAAI,CAAC,QAAQ,CAAC,SAAS,CAAC,OAAO,EAC/B,IAAI,CAAC,QAAQ,CAAC,SAAS,CAAC,QAAQ,EAChC,IAAI,CAAC,QAAQ,CAAC,SAAS,CAAC,IAAI,EAC5B,IAAI,CAAC,QAAQ,CAAC,SAAS,CAAC,MAAM,CACjC,CAAC;QAEF,IAAI,CAAC,SAAS,CAAC,MAAM,CAAC,IAAI,CAAC,YAAY,CAAC,EAAE,CAAC,CAAC,EAAE;YAC1C,IAAI,CAAC,KAAI,CAAC,KAAK,CAAC,WAAW;gBAAE,KAAI,CAAC,WAAW,EAAE,CAAC;QACpD,CAAC,CAAC,CAAC;IACP,CAAC;IAED,2CAAoB,GAApB;;QACI,MAAA,IAAI,CAAC,SAAS,0CAAE,OAAO,EAAE,CAAC;QAC1B,IAAI,CAAC,SAAS,GAAG,KAAK,CAAC,CAAC;IAC5B,CAAC;~~IAeL~~,mBAAC;AAAD,CAAC,~~AArGD~~,CAAkC,mBAAmB,~~GAqGpD~~"}
1	+ {"version":3,"file":"ui.js","sourceRoot":"","sources":["../../../src/extensions/mp4-export/ui.tsx"],"names":[],"mappings":";;AAAA;;;;GAIG;AAEH,OAAO,EAAE,KAAK,EAAE,MAAM,MAAM,CAAC;AAC7B,OAAO,EAAE,YAAY,EAAE,MAAM,gBAAgB,CAAC;AAC9C,OAAO,EAAE,mBAAmB,EAAoB,MAAM,0BAA0B,CAAC;AACjF,OAAO,EAAE,MAAM,EAAE,MAAM,qCAAqC,CAAC;AAC7D,OAAO,EAAE,iBAAiB,EAAE,SAAS,EAAE,IAAI,EAAE,wBAAwB,EAAE,MAAM,oCAAoC,CAAC;AAClH,OAAO,EAAE,iBAAiB,EAAE,MAAM,yCAAyC,CAAC;AAC5E,OAAO,EAAE,QAAQ,EAAE,MAAM,yBAAyB,CAAC;AACnD,OAAO,EAAE,kBAAkB,EAAE,WAAW,EAAE,MAAM,YAAY,CAAC;AAO7D;IAAkC,gCAA8B;IAAhE;QAAA,qEAsGC;QAdG,UAAI,GAAG;YACH,QAAQ,CAAC,IAAI,IAAI,CAAC,CAAC,KAAI,CAAC,KAAK,CAAC,IAAK,CAAC,KAAK,CAAC,CAAC,EAAE,KAAI,CAAC,KAAK,CAAC,IAAK,CAAC,QAAQ,CAAC,CAAC;QAC5E,CAAC,CAAA;QAED,cAAQ,GAAG;;;;;;wBAEH,IAAI,CAAC,QAAQ,CAAC,EAAE,IAAI,EAAE,IAAI,EAAE,CAAC,CAAC;wBACjB,qBAAM,IAAI,CAAC,QAAQ,CAAC,MAAM,EAAE,EAAA;;wBAAnC,IAAI,GAAG,SAA4B;wBACzC,IAAI,CAAC,QAAQ,CAAC,EAAE,IAAI,EAAE,KAAK,EAAE,IAAI,MAAA,EAAE,CAAC,CAAC;;;;wBAErC,OAAO,CAAC,KAAK,CAAC,GAAC,CAAC,CAAC;wBACjB,IAAI,CAAC,QAAQ,CAAC,EAAE,IAAI,EAAE,KAAK,EAAE,CAAC,CAAC;;;;;aAEtC,CAAA;;IACL,CAAC;IAnGG,sBAAI,kCAAQ;aAAZ;YACI,OAAO,IAAI,CAAC,SAAS,IAAI,CAAC,IAAI,CAAC,SAAS,GAAG,IAAI,WAAW,CAAC,IAAI,CAAC,MAAM,CAAC,CAAC,CAAC;QAC7E,CAAC;;;OAAA;IAES,mCAAY,GAAtB;QACI,OAAO;YACH,MAAM,EAAE,kBAAkB;YAC1B,WAAW,EAAE,IAAI;YACjB,KAAK,EAAE,EAAE,MAAM,EAAE,MAAM,EAAE,GAAG,EAAE,wBAAwB,EAAE;SAC3D,CAAC;IACN,CAAC;IAEO,uCAAgB,GAAxB;QAAA,iBAUC;QATG,OAAO,8BACH,uBAAK,SAAS,EAAC,kCAAkC,gBAC7C,uBAAK,SAAS,EAAC,sBAAsB,EAAC,KAAK,EAAE,EAAE,SAAS,EAAE,QAAQ,EAAE,mDAE9D,YACJ,EACN,KAAC,MAAM,aAAC,IAAI,EAAE,SAAS,EAAE,OAAO,EAAE,IAAI,CAAC,IAAI,EAAE,KAAK,EAAE,EAAE,SAAS,EAAE,CAAC,EAAE,4CAAyB,EAC7F,KAAC,MAAM,aAAC,OAAO,EAAE,cAAM,OAAA,KAAI,CAAC,QAAQ,CAAC,EAAE,IAAI,EAAE,KAAK,CAAC,EAAE,CAAC,EAA/B,CAA+B,EAAE,KAAK,EAAE,EAAE,SAAS,EAAE,CAAC,EAAE,mCAAgB,YAChG,CAAC;IACR,CAAC;IAES,qCAAc,GAAxB;;QACI,IAAI,IAAI,CAAC,KAAK,CAAC,IAAI,EAAE;YACjB,OAAO,IAAI,CAAC,gBAAgB,EAAE,CAAC;SAClC;QAED,IAAM,IAAI,GAAG,IAAI,CAAC,QAAQ,CAAC;QAC3B,IAAM,OAAO,GAAG,IAAI,CAAC,SAAS,CAAC,OAAO,CAAC,KAAK,CAAC;QAC7C,IAAM,IAAI,GAAG,IAAI,CAAC,SAAS,CAAC,IAAI,CAAC,KAAK,CAAC;QACvC,IAAM,QAAQ,GAAG,IAAI,CAAC,SAAS,CAAC,QAAQ,CAAC,KAAK,CAAC;QAC/C,OAAO,8BACH,KAAC,iBAAiB,IACd,MAAM,EAAE,IAAI,CAAC,SAAS,CAAC,UAAU,CAAC,KAAK,EACvC,MAAM,EAAE,EAAE,OAAO,EAAE,OAAO,aAAP,OAAO,uBAAP,OAAO,CAAE,IAAI,CAAC,IAAI,EAAE,EACvC,cAAc,EAAE,UAAA,EAAE,IAAI,OAAA,IAAI,CAAC,UAAU,CAAC,EAAE,CAAC,OAAO,CAAC,EAA3B,CAA2B,EACjD,UAAU,EAAE,IAAI,CAAC,KAAK,CAAC,IAAI,WAC7B,EACD,OAAO,IAAI,KAAC,iBAAiB,IAC1B,MAAM,EAAE,OAAO,CAAC,MAAM,EACtB,MAAM,EAAE,OAAO,CAAC,MAAM,EACtB,cAAc,EAAE,UAAA,EAAE,IAAI,OAAA,IAAI,CAAC,gBAAgB,CAAC,EAAE,CAAC,EAAzB,CAAyB,EAC/C,UAAU,EAAE,IAAI,CAAC,KAAK,CAAC,IAAI,WAC7B,EACF,uBAAK,SAAS,EAAC,kCAAkC,gBAC7C,wBAAK,SAAS,EAAC,sBAAsB,EAAC,KAAK,EAAE,EAAE,SAAS,EAAE,QAAQ,EAAE,iCACnD,IAAI,CAAC,KAAK,OAAG,IAAI,CAAC,MAAM,EAAC,sBAAM,+BACnB,KAAC,IAAI,IAAC,GAAG,EAAE,iBAAiB,EAAE,MAAM,iBAAG,aAC9D,YACJ,EACN,KAAC,iBAAiB,IACd,MAAM,EAAE,kBAAkB,EAC1B,MAAM,EAAE,IAAI,CAAC,SAAS,CAAC,MAAM,CAAC,KAAK,EACnC,cAAc,EAAE,UAAA,EAAE,IAAI,OAAA,IAAI,CAAC,SAAS,CAAC,MAAM,CAAC,IAAI,CAAC,EAAE,CAAC,EAA9B,CAA8B,EACpD,UAAU,EAAE,IAAI,CAAC,KAAK,CAAC,IAAI,WAC7B,EACF,KAAC,MAAM,aAAC,OAAO,EAAE,IAAI,CAAC,QAAQ,EAAE,KAAK,EAAE,EAAE,SAAS,EAAE,CAAC,EAAE,EACnD,QAAQ,EAAE,IAAI,CAAC,KAAK,CAAC,IAAI,IAAI,CAAC,QAAQ,CAAC,QAAQ,EAC/C,MAAM,EAAE,QAAQ,CAAC,QAAQ,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,KAAK,gBACvC,QAAQ,CAAC,QAAQ,CAAC,CAAC,CAAC,QAAQ,CAAC,CAAC,CAAC,MAAA,QAAQ,CAAC,MAAM,mCAAI,sBAAsB,YACpE,YACV,CAAC;IACR,CAAC;IAED,wCAAiB,GAAjB;QAAA,iBAYC;QAXG,IAAM,MAAM,GAAG,KAAK,CAChB,IAAI,CAAC,QAAQ,CAAC,SAAS,CAAC,UAAU,EAClC,IAAI,CAAC,QAAQ,CAAC,SAAS,CAAC,OAAO,EAC/B,IAAI,CAAC,QAAQ,CAAC,SAAS,CAAC,QAAQ,EAChC,IAAI,CAAC,QAAQ,CAAC,SAAS,CAAC,IAAI,EAC5B,IAAI,CAAC,QAAQ,CAAC,SAAS,CAAC,MAAM,CACjC,CAAC;QAEF,IAAI,CAAC,SAAS,CAAC,MAAM,CAAC,IAAI,CAAC,YAAY,CAAC,EAAE,CAAC,CAAC,EAAE;YAC1C,IAAI,CAAC,KAAI,CAAC,KAAK,CAAC,WAAW;gBAAE,KAAI,CAAC,WAAW,EAAE,CAAC;QACpD,CAAC,CAAC,CAAC;IACP,CAAC;IAED,2CAAoB,GAApB;;QACI,MAAA,IAAI,CAAC,SAAS,0CAAE,OAAO,EAAE,CAAC;QAC1B,IAAI,CAAC,SAAS,GAAG,KAAK,CAAC,CAAC;IAC5B,CAAC;IAgBL,mBAAC;AAAD,CAAC,AAtGD,CAAkC,mBAAmB,GAsGpD"}

package/lib/extensions/pdbe/structure-quality-report/behavior.js CHANGED Viewed

@@ -38,7 +38,7 @@ export var PDBeStructureQualityReport = PluginBehavior.create({
                             var issues = StructureQualityReport.getIssues(se);
                             if (issues.length === 0)
                                 return 'Validation: No Issues';
-                            return "Validation: " + issues.join(', ');
+                            return "Validation: ".concat(issues.join(', '));
                         default: return void 0;
                     }
                 }

package/lib/extensions/pdbe/structure-quality-report/behavior.js.map CHANGED Viewed

	@@ -1 +1 @@
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package/lib/extensions/pdbe/structure-quality-report/prop.js CHANGED Viewed

@@ -26,7 +26,7 @@ var StructureQualityReport;
 (function (StructureQualityReport) {
     StructureQualityReport.DefaultServerUrl = 'https://www.ebi.ac.uk/pdbe/api/validation/residuewise_outlier_summary/entry/';
     function getEntryUrl(pdbId, serverUrl) {
-        return serverUrl + "/" + pdbId.toLowerCase();
+        return "".concat(serverUrl, "/").concat(pdbId.toLowerCase());
     }
     StructureQualityReport.getEntryUrl = getEntryUrl;
     function isApplicable(model) {

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package/lib/extensions/rcsb/assembly-symmetry/behavior.d.ts CHANGED Viewed

@@ -25,18 +25,18 @@ declare const AssemblySymmetry3D: StateTransformer<PluginStateObject.Molecule.St
     ignoreLight: boolean;
     xrayShaded: boolean;
     alpha: number;
-    quality: "custom" | "auto" | "highest" | "higher" | "high" | "medium" | "low" | "lower" | "lowest";
-    axesColor: PD.NamedParams<PD.Normalize<unknown>, "byOrder"> | PD.NamedParams<PD.Normalize<{
+    quality: "auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest";
+    axesColor: PD.NamedParams<PD.Normalize<{
         colorValue: any;
-    }>, "uniform">;
+    }>, "uniform"> | PD.NamedParams<PD.Normalize<unknown>, "byOrder">;
 }>>;
 export declare const AssemblySymmetryPresetParams: {
     ignoreHydrogens: PD.Base<boolean | undefined>;
-    quality: PD.Base<"custom" | "auto" | "highest" | "higher" | "high" | "medium" | "low" | "lower" | "lowest" | undefined>;
+    quality: PD.Base<"auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest" | undefined>;
     theme: PD.Base<PD.Normalize<{
-        globalName: "occupancy" | "uniform" | "atom-id" | "carbohydrate-symbol" | "chain-id" | "element-index" | "operator-name" | "element-symbol" | "entity-id" | "entity-source" | "hydrophobicity" | "illustrative" | "model-index" | "molecule-type" | "operator-hkl" | "partial-charge" | "polymer-id" | "polymer-index" | "residue-name" | "secondary-structure" | "sequence-id" | "shape-group" | "uncertainty" | "unit-index" | undefined;
-        carbonColor: "chain-id" | "operator-name" | "element-symbol" | undefined;
-        symmetryColor: "occupancy" | "uniform" | "atom-id" | "carbohydrate-symbol" | "chain-id" | "element-index" | "operator-name" | "element-symbol" | "entity-id" | "entity-source" | "hydrophobicity" | "illustrative" | "model-index" | "molecule-type" | "operator-hkl" | "partial-charge" | "polymer-id" | "polymer-index" | "residue-name" | "secondary-structure" | "sequence-id" | "shape-group" | "uncertainty" | "unit-index" | undefined;
+        globalName: "uniform" | "occupancy" | "element-index" | "element-symbol" | "carbohydrate-symbol" | "chain-id" | "operator-name" | "molecule-type" | "polymer-id" | "polymer-index" | "residue-name" | "secondary-structure" | "sequence-id" | "shape-group" | "unit-index" | "uncertainty" | "entity-source" | "illustrative" | "hydrophobicity" | "model-index" | "operator-hkl" | "partial-charge" | "atom-id" | "entity-id" | undefined;
+        carbonColor: "element-symbol" | "chain-id" | "operator-name" | undefined;
+        symmetryColor: "uniform" | "occupancy" | "element-index" | "element-symbol" | "carbohydrate-symbol" | "chain-id" | "operator-name" | "molecule-type" | "polymer-id" | "polymer-index" | "residue-name" | "secondary-structure" | "sequence-id" | "shape-group" | "unit-index" | "uncertainty" | "entity-source" | "illustrative" | "hydrophobicity" | "model-index" | "operator-hkl" | "partial-charge" | "atom-id" | "entity-id" | undefined;
         focus: PD.Normalize<{
             name: any;
             params: any;
@@ -45,7 +45,7 @@ export declare const AssemblySymmetryPresetParams: {
 };
 export declare const AssemblySymmetryPreset: StructureRepresentationPresetProvider<{
     ignoreHydrogens: boolean | undefined;
-    quality: "custom" | "auto" | "highest" | "higher" | "high" | "medium" | "low" | "lower" | "lowest" | undefined;
+    quality: "auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest" | undefined;
     theme: PD.Normalize<{
         globalName: any;
         carbonColor: any;

package/lib/extensions/rcsb/assembly-symmetry/behavior.js CHANGED Viewed

@@ -95,7 +95,7 @@ export var InitAssemblySymmetry3D = StateAction.build({
                     return [3 /*break*/, 4];
                 case 3:
                     e_1 = _a.sent();
-                    plugin.log.error("Assembly Symmetry: " + e_1);
+                    plugin.log.error("Assembly Symmetry: ".concat(e_1));
                     return [2 /*return*/];
                 case 4:
                     tree = state.build().to(ref)
@@ -145,7 +145,7 @@ var AssemblySymmetry3D = PluginStateTransform.BuiltIn({
                     case 2:
                         _b.sent();
                         type = assemblySymmetry.type, kind = assemblySymmetry.kind, symbol = assemblySymmetry.symbol;
-                        return [2 /*return*/, new PluginStateObject.Shape.Representation3D({ repr: repr, sourceData: a.data }, { label: kind, description: type + " (" + symbol + ")" })];
+                        return [2 /*return*/, new PluginStateObject.Shape.Representation3D({ repr: repr, sourceData: a.data }, { label: kind, description: "".concat(type, " (").concat(symbol, ")") })];
                 }
             });
         }); });
@@ -173,7 +173,7 @@ var AssemblySymmetry3D = PluginStateTransform.BuiltIn({
                         b.data.sourceData = a.data;
                         type = assemblySymmetry.type, kind = assemblySymmetry.kind, symbol = assemblySymmetry.symbol;
                         b.label = kind;
-                        b.description = type + " (" + symbol + ")";
+                        b.description = "".concat(type, " (").concat(symbol, ")");
                         return [2 /*return*/, StateTransformer.UpdateResult.Updated];
                 }
             });

package/lib/extensions/rcsb/assembly-symmetry/behavior.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- 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1	+ 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package/lib/extensions/rcsb/assembly-symmetry/color.js CHANGED Viewed

@@ -20,7 +20,7 @@ function getAsymId(unit) {
     }
 }
 function clusterMemberKey(asymId, operList) {
-    return asymId + "-" + operList.join('|');
+    return "".concat(asymId, "-").concat(operList.join('|'));
 }
 export var AssemblySymmetryClusterColorThemeParams = __assign({}, getPaletteParams({ colorList: 'red-yellow-blue' }));
 export function getAssemblySymmetryClusterColorThemeParams(ctx) {

package/lib/extensions/rcsb/assembly-symmetry/color.js.map CHANGED Viewed

	@@ -1 +1 @@
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1	+ {"version":3,"file":"color.js","sourceRoot":"","sources":["../../../../src/extensions/rcsb/assembly-symmetry/color.ts"],"names":[],"mappings":"AAAA;;;;GAIG;;AAIH,OAAO,EAAE,eAAe,IAAI,EAAE,EAAE,MAAM,oCAAoC,CAAC;AAC3E,OAAO,EAAE,wBAAwB,EAAE,gBAAgB,EAAE,MAAM,QAAQ,CAAC;AACpE,OAAO,EAAE,KAAK,EAAE,MAAM,yBAAyB,CAAC;AAChD,OAAO,EAAQ,gBAAgB,EAAE,mBAAmB,EAAE,IAAI,EAAE,MAAM,8BAA8B,CAAC;AAGjG,OAAO,EAAE,UAAU,EAAE,gBAAgB,EAAE,MAAM,iCAAiC,CAAC;AAG/E,IAAM,YAAY,GAAG,KAAK,CAAC,QAAQ,CAAC,CAAC;AAErC,SAAS,SAAS,CAAC,IAAU;IACzB,QAAQ,IAAI,CAAC,IAAI,EAAE;QACf;YACI,OAAO,mBAAmB,CAAC,KAAK,CAAC,aAAa,CAAC;QACnD,qBAAuB;QACvB;YACI,OAAO,mBAAmB,CAAC,MAAM,CAAC,OAAO,CAAC;KACjD;AACL,CAAC;AAED,SAAS,gBAAgB,CAAC,MAAc,EAAE,QAAkB;IACxD,OAAO,UAAG,MAAM,cAAI,QAAQ,CAAC,IAAI,CAAC,GAAG,CAAC,CAAE,CAAC;AAC7C,CAAC;AAED,MAAM,CAAC,IAAM,uCAAuC,gBAC7C,gBAAgB,CAAC,EAAE,SAAS,EAAE,iBAAiB,EAAE,CAAC,CACxD,CAAC;AAEF,MAAM,UAAU,0CAA0C,CAAC,GAAqB;IAC5E,IAAM,MAAM,GAAG,EAAE,CAAC,KAAK,CAAC,uCAAuC,CAAC,CAAC;IACjE,OAAO,MAAM,CAAC;AAClB,CAAC;AAED,MAAM,UAAU,iCAAiC,CAAC,GAAqB,EAAE,KAAyD;;IAC9H,IAAI,KAAK,GAAkB,cAAM,OAAA,YAAY,EAAZ,CAAY,CAAC;IAC9C,IAAI,MAA6C,CAAC;IAElD,IAAM,gBAAgB,GAAG,GAAG,CAAC,SAAS,IAAI,wBAAwB,CAAC,GAAG,CAAC,GAAG,CAAC,SAAS,CAAC,CAAC;IACtF,IAAM,WAAW,GAAG,gBAAgB,aAAhB,gBAAgB,uBAAhB,gBAAgB,CAAE,OAAO,CAAC;IAE9C,IAAM,QAAQ,GAAG,MAAA,gBAAgB,aAAhB,gBAAgB,uBAAhB,gBAAgB,CAAE,KAAK,0CAAE,QAAQ,CAAC;IAEnD,IAAI,CAAA,QAAQ,aAAR,QAAQ,uBAAR,QAAQ,CAAE,MAAM,KAAI,GAAG,CAAC,SAAS,EAAE;QACnC,IAAM,GAAC,GAAG,gBAAgB,CAAC,QAAQ,CAAC,MAAM,CAAC,GAAG,CAAC,SAAS,CAAC,CAAC;QAE1D,IAAM,iBAAe,GAAG,IAAI,GAAG,EAAkB,CAAC;QAClD,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,EAAE,GAAG,QAAQ,CAAC,MAAM,EAAE,CAAC,GAAG,EAAE,EAAE,EAAE,CAAC,EAAE;YACvC,IAAA,OAAO,GAAK,QAAQ,CAAC,CAAC,CAAE,QAAjB,CAAkB;YACjC,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,EAAE,GAAG,OAAO,CAAC,MAAM,EAAE,CAAC,GAAG,EAAE,EAAE,EAAE,CAAC,EAAE;gBAC9C,IAAM,MAAM,GAAG,OAAO,CAAC,CAAC,CAAE,CAAC,OAAO,CAAC;gBACnC,IAAM,QAAQ,GAAG,kBAAI,OAAO,CAAC,CAAC,CAAE,CAAC,yBAAyB,IAAI,EAAE,OAAa,CAAC;gBAC9E,iBAAe,CAAC,GAAG,CAAC,gBAAgB,CAAC,MAAM,EAAE,QAAQ,CAAC,EAAE,CAAC,CAAC,CAAC;gBAC3D,IAAI,QAAQ,CAAC,MAAM,KAAK,CAAC,EAAE;oBACvB,QAAQ,CAAC,IAAI,CAAC,GAAG,CAAC,CAAC,CAAC,4DAA4D;oBAChF,iBAAe,CAAC,GAAG,CAAC,gBAAgB,CAAC,MAAM,EAAE,QAAQ,CAAC,EAAE,CAAC,CAAC,CAAC;iBAC9D;aACJ;SACJ;QACD,IAAM,SAAO,GAAG,UAAU,CAAC,QAAQ,CAAC,MAAM,EAAE,KAAK,CAAC,CAAC;QACnD,MAAM,GAAG,SAAO,CAAC,MAAM,CAAC;QAExB,IAAM,YAAU,GAAU,EAAE,CAAC;QAC7B,IAAM,UAAQ,GAAG,UAAC,QAAmC;YACzC,IAAA,QAAQ,GAAK,QAAQ,CAAC,IAAI,CAAC,YAAY,CAAC,QAAQ,SAAxC,CAAyC;YACzD,IAAM,MAAM,GAAG,SAAS,CAAC,QAAQ,CAAC,IAAI,CAAC,CAAC,QAAQ,CAAC,CAAC;YAClD,IAAM,OAAO,GAAG,iBAAe,CAAC,GAAG,CAAC,gBAAgB,CAAC,MAAM,EAAE,CAAA,QAAQ,aAAR,QAAQ,uBAAR,QAAQ,CAAE,QAAQ,KAAI,YAAU,CAAC,CAAC,CAAC;YAChG,OAAO,OAAO,KAAK,SAAS,CAAC,CAAC,CAAC,SAAO,CAAC,KAAK,CAAC,OAAO,CAAC,CAAC,CAAC,CAAC,YAAY,CAAC;QACzE,CAAC,CAAC;QAEF,KAAK,GAAG,UAAC,QAAkB;YACvB,IAAI,gBAAgB,CAAC,QAAQ,CAAC,EAAE,CAAC,QAAQ,CAAC,EAAE;gBACxC,OAAO,UAAQ,CAAC,QAAQ,CAAC,CAAC;aAC7B;iBAAM,IAAI,IAAI,CAAC,UAAU,CAAC,QAAQ,CAAC,EAAE;gBAClC,GAAC,CAAC,IAAI,GAAG,QAAQ,CAAC,KAAK,CAAC;gBACxB,GAAC,CAAC,OAAO,GAAG,QAAQ,CAAC,KAAK,CAAC,QAAQ,CAAC,QAAQ,CAAC,MAAM,CAAC,CAAC;gBACrD,OAAO,UAAQ,CAAC,GAAC,CAAC,CAAC;aACtB;YACD,OAAO,YAAY,CAAC;QACxB,CAAC,CAAC;KACL;IAED,OAAO;QACH,OAAO,EAAE,iCAAiC;QAC1C,WAAW,EAAE,UAAU;QACvB,KAAK,OAAA;QACL,KAAK,OAAA;QACL,WAAW,aAAA;QACX,WAAW,EAAE,2HAA2H;QACxI,MAAM,QAAA;KACT,CAAC;AACN,CAAC;AAED,MAAM,CAAC,IAAM,yCAAyC,GAA+F;IACjJ,IAAI,EAAE,gBAAgB,CAAC,GAAG,CAAC,OAAO;IAClC,KAAK,EAAE,2BAA2B;IAClC,QAAQ,2BAA8B;IACtC,OAAO,EAAE,iCAAiC;IAC1C,SAAS,EAAE,0CAA0C;IACrD,aAAa,EAAE,EAAE,CAAC,gBAAgB,CAAC,uCAAuC,CAAC;IAC3E,YAAY,EAAE,UAAC,GAAqB,IAAK,OAAA,gBAAgB,CAAC,YAAY,CAAC,GAAG,CAAC,SAAS,CAAC,EAA5C,CAA4C;IACrF,sBAAsB,EAAE;QACpB,MAAM,EAAE,UAAC,GAA2B,EAAE,IAAsB,IAAK,OAAA,IAAI,CAAC,SAAS,CAAC,CAAC,CAAC,wBAAwB,CAAC,MAAM,CAAC,GAAG,EAAE,IAAI,CAAC,SAAS,EAAE,KAAK,CAAC,EAAE,IAAI,CAAC,CAAC,CAAC,CAAC,OAAO,CAAC,OAAO,EAAE,EAAvG,CAAuG;QACxK,MAAM,EAAE,UAAC,IAAI,IAAK,OAAA,IAAI,CAAC,SAAS,IAAI,wBAAwB,CAAC,GAAG,CAAC,IAAI,CAAC,SAAS,EAAE,KAAK,CAAC,EAArE,CAAqE;KAC1F;CACJ,CAAC"}

package/lib/extensions/rcsb/assembly-symmetry/prop.js CHANGED Viewed

@@ -139,7 +139,7 @@ export function getSymmetrySelectParam(structure) {
             for (var i = 0, il = assemblySymmetryData.length; i < il; ++i) {
                 var _a = assemblySymmetryData[i], symbol = _a.symbol, kind = _a.kind;
                 if (symbol !== 'C1') {
-                    options.push([i, i + 1 + ": " + symbol + " " + kind]);
+                    options.push([i, "".concat(i + 1, ": ").concat(symbol, " ").concat(kind)]);
                 }
             }
             if (options.length > 1) {
@@ -206,7 +206,7 @@ export var AssemblySymmetryProvider = CustomStructureProperty.createProvider({
                     assemblySymmetryData = AssemblySymmetryDataProvider.get(data).value;
                     assemblySymmetry = assemblySymmetryData === null || assemblySymmetryData === void 0 ? void 0 : assemblySymmetryData[p.symmetryIndex];
                     if (!assemblySymmetry)
-                        new Error("No assembly symmetry found for index " + p.symmetryIndex);
+                        new Error("No assembly symmetry found for index ".concat(p.symmetryIndex));
                     return [2 /*return*/, { value: assemblySymmetry }];
             }
         });

package/lib/extensions/rcsb/assembly-symmetry/prop.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- 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1	+ 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package/lib/extensions/rcsb/assembly-symmetry/representation.d.ts CHANGED Viewed

@@ -17,10 +17,10 @@ export declare const AssemblySymmetryParams: {
     ignoreLight: PD.BooleanParam;
     xrayShaded: PD.BooleanParam;
     alpha: PD.Numeric;
-    quality: PD.Select<"custom" | "auto" | "highest" | "higher" | "high" | "medium" | "low" | "lower" | "lowest">;
-    axesColor: PD.Mapped<PD.NamedParams<PD.Normalize<unknown>, "byOrder"> | PD.NamedParams<PD.Normalize<{
+    quality: PD.Select<"auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest">;
+    axesColor: PD.Mapped<PD.NamedParams<PD.Normalize<{
         colorValue: Color;
-    }>, "uniform">>;
+    }>, "uniform"> | PD.NamedParams<PD.Normalize<unknown>, "byOrder">>;
 };
 export declare type AssemblySymmetryParams = typeof AssemblySymmetryParams;
 export declare type AssemblySymmetryProps = PD.Values<AssemblySymmetryParams>;

package/lib/extensions/rcsb/assembly-symmetry/representation.js CHANGED Viewed

@@ -61,7 +61,7 @@ export var AssemblySymmetryParams = __assign(__assign(__assign({}, AxesParams),
 function getAssemblyName(s) {
     var _a;
     var id = ((_a = s.units[0].conformation.operator.assembly) === null || _a === void 0 ? void 0 : _a.id) || '';
-    return isInteger(id) ? "Assembly " + id : id;
+    return isInteger(id) ? "Assembly ".concat(id) : id;
 }
 var t = Mat4.identity();
 var tmpV = Vec3();
@@ -143,9 +143,9 @@ function getAxesShape(ctx, data, props, shape) {
         var type = assemblySymmetry.type, symbol = assemblySymmetry.symbol, kind = assemblySymmetry.kind, rotation_axes = assemblySymmetry.rotation_axes;
         var order = (_a = rotation_axes[groupId]) === null || _a === void 0 ? void 0 : _a.order;
         return [
-            "<small>" + data.model.entryId + "</small>",
-            "<small>" + getAssemblyName(data) + "</small>",
-            "Axis " + (groupId + 1) + " with Order " + order + " of " + type + " " + kind + " (" + symbol + ")"
+            "<small>".concat(data.model.entryId, "</small>"),
+            "<small>".concat(getAssemblyName(data), "</small>"),
+            "Axis ".concat(groupId + 1, " with Order ").concat(order, " of ").concat(type, " ").concat(kind, " (").concat(symbol, ")")
         ].join(' | ');
     };
     return Shape.create('Axes', data, geo, getColor, function () { return 1; }, getLabel);
@@ -346,9 +346,9 @@ function getCageShape(ctx, data, props, shape) {
         var type = assemblySymmetry.type, symbol = assemblySymmetry.symbol, kind = assemblySymmetry.kind;
         data.model.entryId;
         return [
-            "<small>" + data.model.entryId + "</small>",
-            "<small>" + getAssemblyName(data) + "</small>",
-            "Cage of " + type + " " + kind + " (" + symbol + ")"
+            "<small>".concat(data.model.entryId, "</small>"),
+            "<small>".concat(getAssemblyName(data), "</small>"),
+            "Cage of ".concat(type, " ").concat(kind, " (").concat(symbol, ")")
         ].join(' | ');
     };
     return Shape.create('Cage', data, geo, getColor, function () { return 1; }, getLabel);

package/lib/extensions/rcsb/assembly-symmetry/representation.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- 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package/lib/extensions/rcsb/graphql/types.d.ts CHANGED Viewed

@@ -1,4 +1,5 @@
 export declare type Maybe<T> = T | null;
+export declare type InputMaybe<T> = Maybe<T>;
 export declare type Exact<T extends {
     [key: string]: unknown;
 }> = {
@@ -6653,7 +6654,7 @@ export declare type Query = {
 };
 /** Query root */
 export declare type QueryAssembliesArgs = {
-    assembly_ids: ReadonlyArray<Maybe<Scalars['String']>>;
+    assembly_ids: ReadonlyArray<InputMaybe<Scalars['String']>>;
 };
 /** Query root */
 export declare type QueryAssemblyArgs = {
@@ -6676,7 +6677,7 @@ export declare type QueryBranched_Entity_InstanceArgs = {
 };
 /** Query root */
 export declare type QueryBranched_Entity_InstancesArgs = {
-    instance_ids: ReadonlyArray<Maybe<Scalars['String']>>;
+    instance_ids: ReadonlyArray<InputMaybe<Scalars['String']>>;
 };
 /** Query root */
 export declare type QueryChem_CompArgs = {
@@ -6684,7 +6685,7 @@ export declare type QueryChem_CompArgs = {
 };
 /** Query root */
 export declare type QueryChem_CompsArgs = {
-    comp_ids: ReadonlyArray<Maybe<Scalars['String']>>;
+    comp_ids: ReadonlyArray<InputMaybe<Scalars['String']>>;
 };
 /** Query root */
 export declare type QueryEntriesArgs = {
@@ -6710,7 +6711,7 @@ export declare type QueryNonpolymer_Entity_InstanceArgs = {
 };
 /** Query root */
 export declare type QueryNonpolymer_Entity_InstancesArgs = {
-    instance_ids: ReadonlyArray<Maybe<Scalars['String']>>;
+    instance_ids: ReadonlyArray<InputMaybe<Scalars['String']>>;
 };
 /** Query root */
 export declare type QueryPolymer_EntitiesArgs = {
@@ -6728,7 +6729,7 @@ export declare type QueryPolymer_Entity_InstanceArgs = {
 };
 /** Query root */
 export declare type QueryPolymer_Entity_InstancesArgs = {
-    instance_ids: ReadonlyArray<Maybe<Scalars['String']>>;
+    instance_ids: ReadonlyArray<InputMaybe<Scalars['String']>>;
 };
 /** Query root */
 export declare type QueryPubmedArgs = {
@@ -12849,25 +12850,25 @@ export declare type AssemblySymmetryQueryVariables = Exact<{
     entry_id: Scalars['String'];
 }>;
 export declare type AssemblySymmetryQuery = {
-    readonly assembly?: Maybe<{
-        readonly rcsb_struct_symmetry?: Maybe<ReadonlyArray<Maybe<{
+    readonly assembly?: {
+        readonly rcsb_struct_symmetry?: ReadonlyArray<{
             readonly kind: string;
             readonly oligomeric_state: string;
-            readonly stoichiometry: ReadonlyArray<Maybe<string>>;
+            readonly stoichiometry: ReadonlyArray<string | null | undefined>;
             readonly symbol: string;
             readonly type: string;
-            readonly clusters: ReadonlyArray<Maybe<{
-                readonly avg_rmsd?: Maybe<number>;
-                readonly members: ReadonlyArray<Maybe<{
+            readonly clusters: ReadonlyArray<{
+                readonly avg_rmsd?: number | null | undefined;
+                readonly members: ReadonlyArray<{
                     readonly asym_id: string;
-                    readonly pdbx_struct_oper_list_ids?: Maybe<ReadonlyArray<Maybe<string>>>;
-                }>>;
-            }>>;
-            readonly rotation_axes?: Maybe<ReadonlyArray<Maybe<{
-                readonly order?: Maybe<number>;
-                readonly start: ReadonlyArray<Maybe<number>>;
-                readonly end: ReadonlyArray<Maybe<number>>;
-            }>>>;
-        }>>>;
-    }>;
+                    readonly pdbx_struct_oper_list_ids?: ReadonlyArray<string | null | undefined> | null | undefined;
+                } | null | undefined>;
+            } | null | undefined>;
+            readonly rotation_axes?: ReadonlyArray<{
+                readonly order?: number | null | undefined;
+                readonly start: ReadonlyArray<number | null | undefined>;
+                readonly end: ReadonlyArray<number | null | undefined>;
+            } | null | undefined> | null | undefined;
+        } | null | undefined> | null | undefined;
+    } | null | undefined;
 };

package/lib/extensions/rcsb/validation-report/behavior.d.ts CHANGED Viewed

@@ -12,7 +12,7 @@ export declare const RCSBValidationReport: import("../../../mol-state/transforme
 }>;
 export declare const ValidationReportGeometryQualityPreset: StructureRepresentationPresetProvider<{
     ignoreHydrogens: boolean | undefined;
-    quality: "custom" | "auto" | "highest" | "higher" | "high" | "medium" | "low" | "lower" | "lowest" | undefined;
+    quality: "auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest" | undefined;
     theme: PD.Normalize<{
         globalName: any;
         carbonColor: any;
@@ -48,7 +48,7 @@ export declare const ValidationReportGeometryQualityPreset: StructureRepresentat
 }>;
 export declare const ValidationReportDensityFitPreset: StructureRepresentationPresetProvider<{
     ignoreHydrogens: boolean | undefined;
-    quality: "custom" | "auto" | "highest" | "higher" | "high" | "medium" | "low" | "lower" | "lowest" | undefined;
+    quality: "auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest" | undefined;
     theme: PD.Normalize<{
         globalName: any;
         carbonColor: any;
@@ -76,7 +76,7 @@ export declare const ValidationReportDensityFitPreset: StructureRepresentationPr
 }>;
 export declare const ValidationReportRandomCoilIndexPreset: StructureRepresentationPresetProvider<{
     ignoreHydrogens: boolean | undefined;
-    quality: "custom" | "auto" | "highest" | "higher" | "high" | "medium" | "low" | "lower" | "lowest" | undefined;
+    quality: "auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest" | undefined;
     theme: PD.Normalize<{
         globalName: any;
         carbonColor: any;