npm - molstar - Versions diffs - 2.3.5 → 2.3.9 - Mend

molstar 2.3.5 → 2.3.9

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 (1658) hide show

package/lib/mol-theme/color/entity-source.js CHANGED Viewed

@@ -26,10 +26,10 @@ export function getEntitySourceColorThemeParams(ctx) {
     return params;
 }
 function modelEntityKey(modelIndex, entityId) {
-    return modelIndex + "|" + entityId;
+    return "".concat(modelIndex, "|").concat(entityId);
 }
 function srcKey(modelIndex, entityId, organism, srcId, plasmid, gene) {
-    return modelIndex + "|" + entityId + "|" + organism + "|" + (gene ? gene : (plasmid ? plasmid : srcId));
+    return "".concat(modelIndex, "|").concat(entityId, "|").concat(organism, "|").concat(gene ? gene : (plasmid ? plasmid : srcId));
 }
 function addSrc(seqToSrcByModelEntity, srcKeySerialMap, modelIndex, model, entity_src, scientific_name, plasmid_name, gene_src_gene) {
     var entity_id = entity_src.entity_id, pdbx_src_id = entity_src.pdbx_src_id, pdbx_beg_seq_num = entity_src.pdbx_beg_seq_num, pdbx_end_seq_num = entity_src.pdbx_end_seq_num;
@@ -85,8 +85,8 @@ function getLabelTable(srcKeySerialMap) {
     return Array.from(srcKeySerialMap.keys()).map(function (v) {
         var vs = v.split('|');
         var organism = vs[2];
-        var name = isInteger(vs[3]) ? "Unnamed " + ++unnamedCount : vs[3];
-        return "" + name + (organism ? " (" + organism + ")" : '');
+        var name = isInteger(vs[3]) ? "Unnamed ".concat(++unnamedCount) : vs[3];
+        return "".concat(name).concat(organism ? " (".concat(organism, ")") : '');
     });
 }
 export function EntitySourceColorTheme(ctx, props) {

package/lib/mol-theme/color/entity-source.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- 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1	+ 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package/lib/mol-theme/color/operator-hkl.js CHANGED Viewed

@@ -26,7 +26,7 @@ export function getOperatorHklColorThemeParams(ctx) {
 }
 var hklOffset = 10000;
 function hklKey(hkl) {
-    return hkl.map(function (v) { return ("" + (v + hklOffset)).padStart(5, '0'); }).join('');
+    return hkl.map(function (v) { return "".concat(v + hklOffset).padStart(5, '0'); }).join('');
 }
 function hklKeySplit(key) {
     var len = integerDigitCount(hklOffset, 0);
@@ -63,7 +63,7 @@ export function OperatorHklColorTheme(ctx, props) {
             if (labelTable_1[i] === undefined)
                 labelTable_1[i] = label;
             else
-                labelTable_1[i] += ", " + label;
+                labelTable_1[i] += ", ".concat(label);
         });
         var labelOptions = {
             minLabel: formatHkl(min),

package/lib/mol-theme/color/operator-hkl.js.map CHANGED Viewed

	@@ -1 +1 @@
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package/lib/mol-theme/color.d.ts CHANGED Viewed

@@ -102,7 +102,7 @@ declare namespace ColorTheme {
             }>, "colors">>;
         }, "element-index">;
         'element-symbol': Provider<{
-            carbonColor: PD.Mapped<PD.NamedParams<PD.Normalize<{
+            carbonColor: PD.Mapped<PD.NamedParams<PD.Normalize<unknown>, "element-symbol"> | PD.NamedParams<PD.Normalize<{
                 palette: PD.NamedParams<PD.Normalize<{
                     maxCount: any;
                     hue: any;
@@ -125,7 +125,7 @@ declare namespace ColorTheme {
                 }>, "generate"> | PD.NamedParams<PD.Normalize<{
                     list: any;
                 }>, "colors">;
-            }>, "operator-name"> | PD.NamedParams<PD.Normalize<unknown>, "element-symbol">>;
+            }>, "operator-name">>;
             saturation: PD.Numeric;
             lightness: PD.Numeric;
         }, "element-symbol">;

package/lib/mol-theme/label.d.ts CHANGED Viewed

@@ -18,6 +18,7 @@ export declare const DefaultLabelOptions: {
 export declare type LabelOptions = typeof DefaultLabelOptions;
 export declare function lociLabel(loci: Loci, options?: Partial<LabelOptions>): string;
 export declare function structureElementStatsLabel(stats: StructureElement.Stats, options?: Partial<LabelOptions>): string;
+export declare function structureElementLociLabelMany(locis: StructureElement.Loci[], options?: Partial<LabelOptions>): string;
 export declare function bondLabel(bond: Bond.Location, options?: Partial<LabelOptions>): string;
 export declare function bundleLabel(bundle: Loci.Bundle<any>, options?: Partial<LabelOptions>): string;
 export declare function _bundleLabel(bundle: Loci.Bundle<any>, options: LabelOptions): string;

package/lib/mol-theme/label.js CHANGED Viewed

@@ -45,8 +45,8 @@ export function lociLabel(loci, options) {
             return loci.volume.label || 'Volume';
         case 'isosurface-loci':
             return [
-                "" + (loci.volume.label || 'Volume'),
-                "Isosurface at " + Volume.IsoValue.toString(loci.isoValue)
+                "".concat(loci.volume.label || 'Volume'),
+                "Isosurface at ".concat(Volume.IsoValue.toString(loci.isoValue))
             ].join(' | ');
         case 'cell-loci':
             var size = OrderedSet.size(loci.indices);
@@ -54,20 +54,20 @@ export function lociLabel(loci, options) {
             var absVal = Volume.IsoValue.absolute(loci.volume.grid.cells.data[start]);
             var relVal = Volume.IsoValue.toRelative(absVal, loci.volume.grid.stats);
             var label = [
-                "" + (loci.volume.label || 'Volume'),
-                "" + (size === 1 ? "Cell #" + start : size + " Cells")
+                "".concat(loci.volume.label || 'Volume'),
+                "".concat(size === 1 ? "Cell #".concat(start) : "".concat(size, " Cells"))
             ];
             if (size === 1) {
-                label.push(Volume.IsoValue.toString(absVal) + " (" + Volume.IsoValue.toString(relVal) + ")");
+                label.push("".concat(Volume.IsoValue.toString(absVal), " (").concat(Volume.IsoValue.toString(relVal), ")"));
             }
             return label.join(' | ');
     }
 }
 function countLabel(count, label) {
-    return count === 1 ? "1 " + label : count + " " + label + "s";
+    return count === 1 ? "1 ".concat(label) : "".concat(count, " ").concat(label, "s");
 }
 function otherLabel(count, location, granularity, hidePrefix, reverse, condensed) {
-    return elementLabel(location, { granularity: granularity, hidePrefix: hidePrefix, reverse: reverse, condensed: condensed }) + " <small>[+ " + countLabel(count - 1, "other " + capitalize(granularity)) + "]</small>";
+    return "".concat(elementLabel(location, { granularity: granularity, hidePrefix: hidePrefix, reverse: reverse, condensed: condensed }), " <small>[+ ").concat(countLabel(count - 1, "other ".concat(capitalize(granularity))), "]</small>");
 }
 /** Gets residue count of the model chain segments the unit is a subset of */
 function getResidueCount(unit) {
@@ -83,6 +83,15 @@ export function structureElementStatsLabel(stats, options) {
     var label = _structureElementStatsLabel(stats, o.countsOnly, o.hidePrefix, o.condensed, o.reverse);
     return o.htmlStyling ? label : stripTags(label);
 }
+export function structureElementLociLabelMany(locis, options) {
+    if (options === void 0) { options = {}; }
+    var stats = StructureElement.Stats.create();
+    for (var _i = 0, locis_1 = locis; _i < locis_1.length; _i++) {
+        var l = locis_1[_i];
+        StructureElement.Stats.add(stats, stats, StructureElement.Stats.ofLoci(l));
+    }
+    return structureElementStatsLabel(stats, options);
+}
 function _structureElementStatsLabel(stats, countsOnly, hidePrefix, condensed, reverse) {
     if (countsOnly === void 0) { countsOnly = false; }
     if (hidePrefix === void 0) { hidePrefix = false; }
@@ -219,10 +228,10 @@ function _elementLabel(location, granularity, hidePrefix, reverse) {
         var entry = location.unit.model.entry;
         if (entry.length > 30)
             entry = entry.substr(0, 27) + '\u2026'; // ellipsis
-        label.push("<small>" + entry + "</small>"); // entry
+        label.push("<small>".concat(entry, "</small>")); // entry
         if (granularity !== 'structure') {
-            label.push("<small>Model " + location.unit.model.modelNum + "</small>"); // model
-            label.push("<small>Instance " + location.unit.conformation.operator.name + "</small>"); // instance
+            label.push("<small>Model ".concat(location.unit.model.modelNum, "</small>")); // model
+            label.push("<small>Instance ".concat(location.unit.conformation.operator.name, "</small>")); // instance
         }
     }
     if (Unit.isAtomic(location.unit)) {
@@ -251,33 +260,33 @@ function _atomicElementLabel(location, granularity, hideOccupancy) {
     var occupancy = Props.atom.occupancy(location);
     var microHetCompIds = Props.residue.microheterogeneityCompIds(location);
     var compId = granularity === 'residue' && microHetCompIds.length > 1 ?
-        "(" + microHetCompIds.join('|') + ")" : comp_id;
+        "(".concat(microHetCompIds.join('|'), ")") : comp_id;
     var label = [];
     switch (granularity) {
         case 'element':
-            label.push("<b>" + atom_id + "</b>" + (alt_id ? "%" + alt_id : ''));
+            label.push("<b>".concat(atom_id, "</b>").concat(alt_id ? "%".concat(alt_id) : ''));
         case 'conformation':
             if (granularity === 'conformation' && alt_id) {
-                label.push("<small>Conformation</small> <b>" + alt_id + "</b>");
+                label.push("<small>Conformation</small> <b>".concat(alt_id, "</b>"));
             }
         case 'residue':
             var seq_id = label_seq_id === auth_seq_id || !has_label_seq_id ? auth_seq_id : label_seq_id;
-            label.push("<b>" + compId + " " + seq_id + "</b>" + (seq_id !== auth_seq_id ? " <small>[auth</small> <b>" + auth_seq_id + "</b><small>]</small>" : '') + "<b>" + (ins_code ? ins_code : '') + "</b>");
+            label.push("<b>".concat(compId, " ").concat(seq_id, "</b>").concat(seq_id !== auth_seq_id ? " <small>[auth</small> <b>".concat(auth_seq_id, "</b><small>]</small>") : '', "<b>").concat(ins_code ? ins_code : '', "</b>"));
         case 'chain':
             if (label_asym_id === auth_asym_id) {
-                label.push("<b>" + label_asym_id + "</b>");
+                label.push("<b>".concat(label_asym_id, "</b>"));
             }
             else {
                 if (granularity === 'chain' && Unit.Traits.is(location.unit.traits, 1 /* MultiChain */)) {
-                    label.push("<small>[auth</small> <b>" + auth_asym_id + "</b><small>]</small>");
+                    label.push("<small>[auth</small> <b>".concat(auth_asym_id, "</b><small>]</small>"));
                 }
                 else {
-                    label.push("<b>" + label_asym_id + "</b> <small>[auth</small> <b>" + auth_asym_id + "</b><small>]</small>");
+                    label.push("<b>".concat(label_asym_id, "</b> <small>[auth</small> <b>").concat(auth_asym_id, "</b><small>]</small>"));
                 }
             }
     }
     if (label.length > 0 && occupancy !== 1 && !hideOccupancy) {
-        label[0] = label[0] + " <small>[occupancy</small> <b>" + Math.round(100 * occupancy) / 100 + "</b><small>]</small>";
+        label[0] = "".concat(label[0], " <small>[occupancy</small> <b>").concat(Math.round(100 * occupancy) / 100, "</b><small>]</small>");
     }
     return label.reverse();
 }
@@ -294,13 +303,13 @@ function _coarseElementLabel(location, granularity) {
                 var entityIndex = Props.coarse.entityKey(location);
                 var seq = location.unit.model.sequence.byEntityKey[entityIndex];
                 var comp_id = seq.sequence.compId.value(seq_id_begin - 1); // 1-indexed
-                label.push("<b>" + comp_id + " " + seq_id_begin + "</b>");
+                label.push("<b>".concat(comp_id, " ").concat(seq_id_begin, "</b>"));
             }
             else {
-                label.push("<b>" + seq_id_begin + "-" + seq_id_end + "</b>");
+                label.push("<b>".concat(seq_id_begin, "-").concat(seq_id_end, "</b>"));
             }
         case 'chain':
-            label.push("<b>" + asym_id + "</b>");
+            label.push("<b>".concat(asym_id, "</b>"));
     }
     return label.reverse();
 }
@@ -309,11 +318,11 @@ export function distanceLabel(pair, options) {
     if (options === void 0) { options = {}; }
     var o = __assign(__assign(__assign({}, DefaultLabelOptions), { measureOnly: false, unitLabel: '\u212B' }), options);
     var _a = pair.loci.map(function (l) { return Loci.getCenter(l); }), cA = _a[0], cB = _a[1];
-    var distance = Vec3.distance(cA, cB).toFixed(2) + " " + o.unitLabel;
+    var distance = "".concat(Vec3.distance(cA, cB).toFixed(2), " ").concat(o.unitLabel);
     if (o.measureOnly)
         return distance;
     var label = bundleLabel(pair, o);
-    return o.condensed ? distance + " | " + label : "Distance " + distance + "</br>" + label;
+    return o.condensed ? "".concat(distance, " | ").concat(label) : "Distance ".concat(distance, "</br>").concat(label);
 }
 export function angleLabel(triple, options) {
     if (options === void 0) { options = {}; }
@@ -321,20 +330,20 @@ export function angleLabel(triple, options) {
     var _a = triple.loci.map(function (l) { return Loci.getCenter(l); }), cA = _a[0], cB = _a[1], cC = _a[2];
     var vAB = Vec3.sub(Vec3(), cA, cB);
     var vCB = Vec3.sub(Vec3(), cC, cB);
-    var angle = radToDeg(Vec3.angle(vAB, vCB)).toFixed(2) + "\u00B0";
+    var angle = "".concat(radToDeg(Vec3.angle(vAB, vCB)).toFixed(2), "\u00B0");
     if (o.measureOnly)
         return angle;
     var label = bundleLabel(triple, o);
-    return o.condensed ? angle + " | " + label : "Angle " + angle + "</br>" + label;
+    return o.condensed ? "".concat(angle, " | ").concat(label) : "Angle ".concat(angle, "</br>").concat(label);
 }
 export function dihedralLabel(quad, options) {
     if (options === void 0) { options = {}; }
     var o = __assign(__assign(__assign({}, DefaultLabelOptions), { measureOnly: false }), options);
     var _a = quad.loci.map(function (l) { return Loci.getCenter(l); }), cA = _a[0], cB = _a[1], cC = _a[2], cD = _a[3];
-    var dihedral = radToDeg(Vec3.dihedralAngle(cA, cB, cC, cD)).toFixed(2) + "\u00B0";
+    var dihedral = "".concat(radToDeg(Vec3.dihedralAngle(cA, cB, cC, cD)).toFixed(2), "\u00B0");
     if (o.measureOnly)
         return dihedral;
     var label = bundleLabel(quad, o);
-    return o.condensed ? dihedral + " | " + label : "Dihedral " + dihedral + "</br>" + label;
+    return o.condensed ? "".concat(dihedral, " | ").concat(label) : "Dihedral ".concat(dihedral, "</br>").concat(label);
 }
 //# sourceMappingURL=label.js.map

package/lib/mol-theme/label.js.map CHANGED Viewed

	@@ -1 +1 @@
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package/lib/mol-theme/theme.js CHANGED Viewed

@@ -60,7 +60,7 @@ var ThemeRegistry = /** @class */ (function () {
         this._name = new Map();
         objectForEach(builtInThemes, function (p, k) {
             if (p.name !== k)
-                throw new Error("Fix build in themes to have matching names. " + p.name + " " + k);
+                throw new Error("Fix build in themes to have matching names. ".concat(p.name, " ").concat(k));
             _this.add(p);
         });
     }
@@ -89,7 +89,7 @@ var ThemeRegistry = /** @class */ (function () {
     };
     ThemeRegistry.prototype.add = function (provider) {
         if (this._map.has(provider.name)) {
-            throw new Error(provider.name + " already registered.");
+            throw new Error("".concat(provider.name, " already registered."));
         }
         var name = provider.name;
         this._list.push({ name: name, provider: provider });
@@ -113,7 +113,7 @@ var ThemeRegistry = /** @class */ (function () {
     };
     ThemeRegistry.prototype.getName = function (provider) {
         if (!this._name.has(provider))
-            throw new Error("'" + provider.label + "' is not a registered theme provider.");
+            throw new Error("'".concat(provider.label, "' is not a registered theme provider."));
         return this._name.get(provider);
     };
     ThemeRegistry.prototype.create = function (name, ctx, props) {

package/lib/mol-theme/theme.js.map CHANGED Viewed

	@@ -1 +1 @@
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package/lib/mol-util/assets.js CHANGED Viewed

@@ -81,7 +81,7 @@ var AssetManager = /** @class */ (function () {
         var _this = this;
         if (store === void 0) { store = true; }
         if (Asset.isUrl(asset)) {
-            return Task.create("Download " + (asset.title || asset.url), function (ctx) { return __awaiter(_this, void 0, void 0, function () {
+            return Task.create("Download ".concat(asset.title || asset.url), function (ctx) { return __awaiter(_this, void 0, void 0, function () {
                 var entry, _a, _b, _c, _d, data, file, _e, _f;
                 return __generator(this, function (_g) {
                     switch (_g.label) {
@@ -110,7 +110,7 @@ var AssetManager = /** @class */ (function () {
             }); });
         }
         else {
-            return Task.create("Read " + asset.name, function (ctx) { return __awaiter(_this, void 0, void 0, function () {
+            return Task.create("Read ".concat(asset.name), function (ctx) { return __awaiter(_this, void 0, void 0, function () {
                 var entry, _a, _b, _c, _d;
                 return __generator(this, function (_e) {
                     switch (_e.label) {
@@ -123,7 +123,7 @@ var AssetManager = /** @class */ (function () {
                         case 1: return [2 /*return*/, _b.apply(_a, [_e.sent(), asset, this])];
                         case 2:
                             if (!(asset.file instanceof File)) {
-                                throw new Error("Cannot resolve file asset '" + asset.name + "' (" + asset.id + ")");
+                                throw new Error("Cannot resolve file asset '".concat(asset.name, "' (").concat(asset.id, ")"));
                             }
                             if (store) {
                                 this._assets.set(asset.id, { asset: asset, file: asset.file, refCount: 1 });

package/lib/mol-util/assets.js.map CHANGED Viewed

	@@ -1 +1 @@
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package/lib/mol-util/color/color.js CHANGED Viewed

@@ -8,7 +8,7 @@ import { Lab } from './spaces/lab';
 export function Color(hex) { return hex; }
 (function (Color) {
     function toStyle(hexColor) {
-        return "rgb(" + (hexColor >> 16 & 255) + ", " + (hexColor >> 8 & 255) + ", " + (hexColor & 255) + ")";
+        return "rgb(".concat(hexColor >> 16 & 255, ", ").concat(hexColor >> 8 & 255, ", ").concat(hexColor & 255, ")");
     }
     Color.toStyle = toStyle;
     function toHexString(hexColor) {
@@ -16,7 +16,7 @@ export function Color(hex) { return hex; }
     }
     Color.toHexString = toHexString;
     function toRgbString(hexColor) {
-        return "RGB: " + Color.toRgb(hexColor).join(', ');
+        return "RGB: ".concat(Color.toRgb(hexColor).join(', '));
     }
     Color.toRgbString = toRgbString;
     function toRgb(hexColor) {

package/lib/mol-util/color/color.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- 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package/lib/mol-util/color/lists.js CHANGED Viewed

@@ -81,7 +81,7 @@ export var ColorListOptionsSet = ColorListOptions.filter(function (v) { return C
 export function getColorListFromName(name) {
     if (name in ColorLists)
         return ColorLists[name];
-    console.warn("unknown color list named '" + name + "'");
+    console.warn("unknown color list named '".concat(name, "'"));
     return ColorLists['red-yellow-blue'];
 }
 //# sourceMappingURL=lists.js.map