npm - molstar - Versions diffs - 2.3.7 → 2.3.8 - Mend

molstar 2.3.7 → 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 (1415) hide show

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

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

@@ -17,7 +17,7 @@ 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">;
+    quality: PD.Select<"auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest">;
     axesColor: PD.Mapped<PD.NamedParams<PD.Normalize<{
         colorValue: Color;
     }>, "uniform"> | PD.NamedParams<PD.Normalize<unknown>, "byOrder">>;

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

@@ -64,7 +64,7 @@ exports.AssemblySymmetryParams = (0, tslib_1.__assign)((0, tslib_1.__assign)((0,
 function getAssemblyName(s) {
     var _a;
     var id = ((_a = s.units[0].conformation.operator.assembly) === null || _a === void 0 ? void 0 : _a.id) || '';
-    return (0, number_1.isInteger)(id) ? "Assembly " + id : id;
+    return (0, number_1.isInteger)(id) ? "Assembly ".concat(id) : id;
 }
 var t = linear_algebra_1.Mat4.identity();
 var tmpV = (0, linear_algebra_1.Vec3)();
@@ -146,9 +146,9 @@ 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_1.Shape.create('Axes', data, geo, getColor, function () { return 1; }, getLabel);
@@ -349,9 +349,9 @@ 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_1.Shape.create('Cage', data, geo, getColor, function () { return 1; }, getLabel);

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

	@@ -1 +1 @@
1	- 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package/lib/commonjs/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;

package/lib/commonjs/extensions/rcsb/validation-report/behavior.js CHANGED Viewed

@@ -115,7 +115,7 @@ function geometryQualityLabel(loci) {
             }
             var summary_1 = [];
             issues_1.forEach(function (name) { return summary_1.push(name); });
-            return "Geometry Quality <small>(1 Atom)</small>: " + summary_1.join(', ');
+            return "Geometry Quality <small>(1 Atom)</small>: ".concat(summary_1.join(', '));
         }
         var hasValidationReport = false;
         var seen_1 = new Set();
@@ -152,15 +152,15 @@ function geometryQualityLabel(loci) {
         }
         if (!hasValidationReport)
             return;
-        var residueCount = "<small>(" + seen_1.size + " " + (seen_1.size > 1 ? 'Residues' : 'Residue') + ")</small>";
+        var residueCount = "<small>(".concat(seen_1.size, " ").concat(seen_1.size > 1 ? 'Residues' : 'Residue', ")</small>");
         if (cummulativeIssues_1.size === 0) {
-            return "Geometry Quality " + residueCount + ": no issues";
+            return "Geometry Quality ".concat(residueCount, ": no issues");
         }
         var summary_2 = [];
         cummulativeIssues_1.forEach(function (count, name) {
-            summary_2.push("" + name + (count > 1 ? " \u00D7 " + count : ''));
+            summary_2.push("".concat(name).concat(count > 1 ? " \u00D7 ".concat(count) : ''));
         });
-        return "Geometry Quality " + residueCount + ": " + summary_2.join(', ');
+        return "Geometry Quality ".concat(residueCount, ": ").concat(summary_2.join(', '));
     }
 }
 function densityFitLabel(loci) {
@@ -208,14 +208,14 @@ function densityFitLabel(loci) {
             return;
         var summary = [];
         if (rsrzSeen_1.size) {
-            var rsrzCount = "<small>(" + rsrzSeen_1.size + " " + (rsrzSeen_1.size > 1 ? 'Residues avg.' : 'Residue') + ")</small>";
+            var rsrzCount = "<small>(".concat(rsrzSeen_1.size, " ").concat(rsrzSeen_1.size > 1 ? 'Residues avg.' : 'Residue', ")</small>");
             var rsrzAvg = rsrzSum_1 / rsrzSeen_1.size;
-            summary.push("Real-Space R Z-score " + rsrzCount + ": " + rsrzAvg.toFixed(2));
+            summary.push("Real-Space R Z-score ".concat(rsrzCount, ": ").concat(rsrzAvg.toFixed(2)));
         }
         if (rsccSeen_1.size) {
-            var rsccCount = "<small>(" + rsccSeen_1.size + " " + (rsccSeen_1.size > 1 ? 'Residues avg.' : 'Residue') + ")</small>";
+            var rsccCount = "<small>(".concat(rsccSeen_1.size, " ").concat(rsccSeen_1.size > 1 ? 'Residues avg.' : 'Residue', ")</small>");
             var rsccAvg = rsccSum_1 / rsccSeen_1.size;
-            summary.push("Real-Space Correlation Coefficient " + rsccCount + ": " + rsccAvg.toFixed(2));
+            summary.push("Real-Space Correlation Coefficient ".concat(rsccCount, ": ").concat(rsccAvg.toFixed(2)));
         }
         if (summary.length) {
             return summary.join('</br>');
@@ -256,9 +256,9 @@ function randomCoilIndexLabel(loci) {
         }
         if (seen_3.size === 0)
             return;
-        var residueCount = "<small>(" + seen_3.size + " " + (seen_3.size > 1 ? 'Residues avg.' : 'Residue') + ")</small>";
+        var residueCount = "<small>(".concat(seen_3.size, " ").concat(seen_3.size > 1 ? 'Residues avg.' : 'Residue', ")</small>");
         var rciAvg = sum_1 / seen_3.size;
-        return "Random Coil Index " + residueCount + ": " + rciAvg.toFixed(2);
+        return "Random Coil Index ".concat(residueCount, ": ").concat(rciAvg.toFixed(2));
     }
 }
 //

package/lib/commonjs/extensions/rcsb/validation-report/behavior.js.map CHANGED Viewed

	@@ -1 +1 @@
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package/lib/commonjs/extensions/rcsb/validation-report/prop.js CHANGED Viewed

@@ -35,7 +35,7 @@ var ValidationReport;
     ValidationReport.DefaultBaseUrl = '//ftp.rcsb.org/pub/pdb/validation_reports';
     function getEntryUrl(pdbId, baseUrl) {
         var id = pdbId.toLowerCase();
-        return baseUrl + "/" + id.substr(1, 2) + "/" + id + "/" + id + "_validation.xml.gz";
+        return "".concat(baseUrl, "/").concat(id.substr(1, 2), "/").concat(id, "/").concat(id, "_validation.xml.gz");
     }
     ValidationReport.getEntryUrl = getEntryUrl;
     function isApplicable(model) {
@@ -296,7 +296,7 @@ function ClashesBuilder(elementsCount) {
     var seen = new Map();
     return {
         add: function (element, id, magnitude, distance, isSymop) {
-            var hash = id + "|" + (isSymop ? 's' : '');
+            var hash = "".concat(id, "|").concat(isSymop ? 's' : '');
             var other = seen.get(hash);
             if (other !== undefined) {
                 aIndices[aIndices.length] = element;

package/lib/commonjs/extensions/rcsb/validation-report/prop.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- 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package/lib/commonjs/extensions/rcsb/validation-report/representation.d.ts CHANGED Viewed

@@ -24,7 +24,7 @@ export declare const IntraUnitClashParams: {
     dashCap: PD.BooleanParam;
     stubCap: PD.BooleanParam;
     radialSegments: PD.Numeric;
-    unitKinds: PD.MultiSelect<"spheres" | "atomic" | "gaussians">;
+    unitKinds: PD.MultiSelect<"spheres" | "gaussians" | "atomic">;
     includeParent: PD.BooleanParam;
     doubleSided: PD.BooleanParam;
     flipSided: PD.BooleanParam;
@@ -32,7 +32,7 @@ export declare const IntraUnitClashParams: {
     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 IntraUnitClashParams = typeof IntraUnitClashParams;
 export declare function IntraUnitClashVisual(materialId: number): UnitsVisual<IntraUnitClashParams>;
@@ -49,7 +49,7 @@ export declare const InterUnitClashParams: {
     dashCap: PD.BooleanParam;
     stubCap: PD.BooleanParam;
     radialSegments: PD.Numeric;
-    unitKinds: PD.MultiSelect<"spheres" | "atomic" | "gaussians">;
+    unitKinds: PD.MultiSelect<"spheres" | "gaussians" | "atomic">;
     includeParent: PD.BooleanParam;
     doubleSided: PD.BooleanParam;
     flipSided: PD.BooleanParam;
@@ -57,12 +57,12 @@ export declare const InterUnitClashParams: {
     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 InterUnitClashParams = typeof InterUnitClashParams;
 export declare function InterUnitClashVisual(materialId: number): ComplexVisual<InterUnitClashParams>;
 export declare const ClashesParams: {
-    unitKinds: PD.MultiSelect<"spheres" | "atomic" | "gaussians">;
+    unitKinds: PD.MultiSelect<"spheres" | "gaussians" | "atomic">;
     visuals: PD.MultiSelect<"intra-clash" | "inter-clash">;
     linkCap: PD.BooleanParam;
     sizeFactor: PD.Numeric;
@@ -83,11 +83,11 @@ export declare const ClashesParams: {
     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 ClashesParams = typeof ClashesParams;
 export declare function getClashesParams(ctx: ThemeRegistryContext, structure: Structure): {
-    unitKinds: PD.MultiSelect<"spheres" | "atomic" | "gaussians">;
+    unitKinds: PD.MultiSelect<"spheres" | "gaussians" | "atomic">;
     visuals: PD.MultiSelect<"intra-clash" | "inter-clash">;
     linkCap: PD.BooleanParam;
     sizeFactor: PD.Numeric;
@@ -108,12 +108,12 @@ export declare function getClashesParams(ctx: ThemeRegistryContext, structure: S
     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 ClashesRepresentation = StructureRepresentation<ClashesParams>;
 export declare function ClashesRepresentation(ctx: RepresentationContext, getParams: RepresentationParamsGetter<Structure, ClashesParams>): ClashesRepresentation;
 export declare const ClashesRepresentationProvider: StructureRepresentationProvider<{
-    unitKinds: PD.MultiSelect<"spheres" | "atomic" | "gaussians">;
+    unitKinds: PD.MultiSelect<"spheres" | "gaussians" | "atomic">;
     visuals: PD.MultiSelect<"intra-clash" | "inter-clash">;
     linkCap: PD.BooleanParam;
     sizeFactor: PD.Numeric;
@@ -134,5 +134,5 @@ export declare const ClashesRepresentationProvider: StructureRepresentationProvi
     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">;
 }, ValidationReport.Tag.Clashes>;

package/lib/commonjs/extensions/rcsb/validation-report/representation.js CHANGED Viewed

@@ -78,7 +78,7 @@ function getIntraClashLabel(structure, unit, clashes, elements) {
     var mag = magnitude[idx].toFixed(2);
     var dist = distance[idx].toFixed(2);
     return [
-        "Clash id: " + id[idx] + " | Magnitude: " + mag + " \u212B | Distance: " + dist + " \u212B",
+        "Clash id: ".concat(id[idx], " | Magnitude: ").concat(mag, " \u212B | Distance: ").concat(dist, " \u212B"),
         (0, label_1.bondLabel)(structure_1.Bond.Location(structure, unit, clashes.a[idx], structure, unit, clashes.b[idx]))
     ].join('</br>');
 }
@@ -176,7 +176,7 @@ function getInterClashLabel(structure, clashes, elements) {
     var mag = c.props.magnitude.toFixed(2);
     var dist = c.props.distance.toFixed(2);
     return [
-        "Clash id: " + c.props.id + " | Magnitude: " + mag + " \u212B | Distance: " + dist + " \u212B",
+        "Clash id: ".concat(c.props.id, " | Magnitude: ").concat(mag, " \u212B | Distance: ").concat(dist, " \u212B"),
         (0, label_1.bondLabel)(structure_1.Bond.Location(structure, uA, c.indexA, structure, uB, c.indexB))
     ].join('</br>');
 }

package/lib/commonjs/extensions/rcsb/validation-report/representation.js.map CHANGED Viewed

	@@ -1 +1 @@
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