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/mol-plugin-state/manager/structure/hierarchy.js.map CHANGED Viewed

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1	- 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package/lib/mol-plugin-state/manager/structure/measurement.js CHANGED Viewed

@@ -240,7 +240,7 @@ var StructureMeasurementManager = /** @class */ (function (_super) {
                             if (!cell)
                                 continue;
                             arraySetAdd(dependsOn, cell.transform.ref);
-                            selections.push({ key: "l" + i, ref: cell.transform.ref, expression: StructureElement.Loci.toExpression(l) });
+                            selections.push({ key: "l".concat(i), ref: cell.transform.ref, expression: StructureElement.Loci.toExpression(l) });
                         }
                         if (selections.length === 0)
                             return [2 /*return*/];
@@ -275,7 +275,7 @@ var StructureMeasurementManager = /** @class */ (function (_super) {
                             if (!cell)
                                 continue;
                             arraySetAdd(dependsOn, cell.transform.ref);
-                            selections.push({ key: "l" + i, ref: cell.transform.ref, expression: StructureElement.Loci.toExpression(l) });
+                            selections.push({ key: "l".concat(i), ref: cell.transform.ref, expression: StructureElement.Loci.toExpression(l) });
                         }
                         if (selections.length === 0)
                             return [2 /*return*/];
@@ -329,7 +329,7 @@ var StructureMeasurementManager = /** @class */ (function (_super) {
                                 textSize: 0.33,
                                 borderWidth: 0.3,
                                 offsetZ: 0.75,
-                                customText: "" + order++
+                                customText: "".concat(order++)
                             }, { tags: MeasurementOrderLabelTag });
                         }
                         state = this.plugin.state.data;

package/lib/mol-plugin-state/manager/structure/measurement.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- 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package/lib/mol-plugin-state/transforms/data.d.ts CHANGED Viewed

@@ -42,7 +42,7 @@ declare const DownloadBlob: StateTransformer<SO.Root, SO.Data.Blob, PD.Normalize
 }>>;
 declare type RawData = typeof RawData;
 declare const RawData: StateTransformer<SO.Root, SO.Data.String | SO.Data.Binary, PD.Normalize<{
-    data: string | number[] | Uint8Array | ArrayBuffer;
+    data: string | ArrayBuffer | Uint8Array | number[];
     label: string | undefined;
 }>>;
 declare type ReadFile = typeof ReadFile;

package/lib/mol-plugin-state/transforms/data.js CHANGED Viewed

@@ -93,7 +93,7 @@ var DownloadBlob = PluginStateTransform.BuiltIn({
             url: PD.Url('https://www.ebi.ac.uk/pdbe/static/entry/1cbs_updated.cif', { description: 'Resource URL. Must be the same domain or support CORS.' }),
             isBinary: PD.Optional(PD.Boolean(false, { description: 'If true, download data as binary (string otherwise)' })),
             canFail: PD.Optional(PD.Boolean(false, { description: 'Indicate whether the download can fail and not be included in the blob as a result.' }))
-        }, function (e) { return e.id + ": " + e.url; }),
+        }, function (e) { return "".concat(e.id, ": ").concat(e.url); }),
         maxConcurrency: PD.Optional(PD.Numeric(4, { min: 1, max: 12, step: 1 }, { description: 'The maximum number of concurrent downloads.' }))
     }
 })({
@@ -113,7 +113,7 @@ var DownloadBlob = PluginStateTransform.BuiltIn({
                         for (i = 0; i < data.length; i++) {
                             r = data[i], src = params.sources[i];
                             if (r.kind === 'error')
-                                plugin.log.warn("Download " + r.id + " (" + src.url + ") failed: " + r.error);
+                                plugin.log.warn("Download ".concat(r.id, " (").concat(src.url, ") failed: ").concat(r.error));
                             else {
                                 assets.push(r.result);
                                 entries.push(src.isBinary
@@ -122,7 +122,7 @@ var DownloadBlob = PluginStateTransform.BuiltIn({
                             }
                         }
                         cache.assets = assets;
-                        return [2 /*return*/, new SO.Data.Blob(entries, { label: 'Data Blob', description: entries.length + " " + (entries.length === 1 ? 'entry' : 'entries') })];
+                        return [2 /*return*/, new SO.Data.Blob(entries, { label: 'Data Blob', description: "".concat(entries.length, " ").concat(entries.length === 1 ? 'entry' : 'entries') })];
                 }
             });
         }); });
@@ -277,7 +277,7 @@ var ParseBlob = PluginStateTransform.BuiltIn({
         formats: PD.ObjectList({
             id: PD.Text('', { label: 'Unique ID' }),
             format: PD.Select('cif', [['cif', 'cif']])
-        }, function (e) { return e.id + ": " + e.format; })
+        }, function (e) { return "".concat(e.id, ": ").concat(e.format); })
     }
 })({
     apply: function (_a, plugin) {
@@ -305,13 +305,13 @@ var ParseBlob = PluginStateTransform.BuiltIn({
                     case 2:
                         parsed = _e.sent();
                         if (parsed.isError)
-                            throw new Error(e.id + ": " + parsed.message);
+                            throw new Error("".concat(e.id, ": ").concat(parsed.message));
                         entries.push({ id: e.id, kind: 'cif', data: parsed.result });
                         _e.label = 3;
                     case 3:
                         _c++;
                         return [3 /*break*/, 1];
-                    case 4: return [2 /*return*/, new SO.Format.Blob(entries, { label: 'Format Blob', description: entries.length + " " + (entries.length === 1 ? 'entry' : 'entries') })];
+                    case 4: return [2 /*return*/, new SO.Format.Blob(entries, { label: 'Format Blob', description: "".concat(entries.length, " ").concat(entries.length === 1 ? 'entry' : 'entries') })];
                 }
             });
         }); });
@@ -585,7 +585,7 @@ var LazyVolume = PluginStateTransform.BuiltIn({
             color: PD.Color(ColorNames.black),
             alpha: PD.Numeric(1, { min: 0, max: 1, step: 0.01 }),
             volumeIndex: PD.Numeric(0),
-        }, function (e) { return e.type + " " + e.value; })
+        }, function (e) { return "".concat(e.type, " ").concat(e.value); })
     }
 })({
     apply: function (_a) {
@@ -595,7 +595,7 @@ var LazyVolume = PluginStateTransform.BuiltIn({
             var entryId;
             return __generator(this, function (_a) {
                 entryId = Array.isArray(params.entryId) ? params.entryId.join(', ') : params.entryId;
-                return [2 /*return*/, new SO.Volume.Lazy(params, { label: "" + (entryId || params.url), description: 'Lazy Volume' })];
+                return [2 /*return*/, new SO.Volume.Lazy(params, { label: "".concat(entryId || params.url), description: 'Lazy Volume' })];
             });
         }); });
     }

package/lib/mol-plugin-state/transforms/data.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- 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package/lib/mol-plugin-state/transforms/model.d.ts CHANGED Viewed

@@ -84,14 +84,14 @@ declare type StructureFromModel = typeof StructureFromModel;
 declare const StructureFromModel: StateTransformer<SO.Molecule.Model, SO.Molecule.Structure, PD.Normalize<{
     type: PD.NamedParams<PD.Normalize<{
         dynamicBonds: any;
-        ijkMin: any;
-        ijkMax: any;
-    }>, "symmetry"> | PD.NamedParams<PD.Normalize<{
+    }>, "auto"> | PD.NamedParams<PD.Normalize<{
         dynamicBonds: any;
         id: any;
     }>, "assembly"> | PD.NamedParams<PD.Normalize<{
         dynamicBonds: any;
-    }>, "auto"> | PD.NamedParams<PD.Normalize<{
+        ijkMin: any;
+        ijkMax: any;
+    }>, "symmetry"> | PD.NamedParams<PD.Normalize<{
         dynamicBonds: any;
     }>, "model"> | PD.NamedParams<PD.Normalize<{
         dynamicBonds: any;
@@ -154,11 +154,11 @@ export declare const StructureComplexElementTypes: {
 export declare type StructureComplexElementTypes = keyof typeof StructureComplexElementTypes;
 declare type StructureComplexElement = typeof StructureComplexElement;
 declare const StructureComplexElement: StateTransformer<SO.Molecule.Structure, SO.Molecule.Structure, PD.Normalize<{
-    type: "polymer" | "water" | "branched" | "ligand" | "spheres" | "protein" | "nucleic" | "non-standard" | "coarse" | "atomic-sequence" | "atomic-het";
+    type: "spheres" | "polymer" | "water" | "branched" | "ligand" | "coarse" | "protein" | "nucleic" | "non-standard" | "atomic-sequence" | "atomic-het";
 }>>;
 declare type StructureComponent = typeof StructureComponent;
 declare const StructureComponent: StateTransformer<SO.Molecule.Structure, SO.Molecule.Structure, PD.Normalize<{
-    type: PD.NamedParams<Script, "script"> | PD.NamedParams<"polymer" | "water" | "branched" | "ligand" | "ion" | "all" | "protein" | "nucleic" | "lipid" | "non-standard" | "coarse", "static"> | PD.NamedParams<Expression, "expression"> | PD.NamedParams<StructureElement.Bundle, "bundle">;
+    type: PD.NamedParams<"all" | "polymer" | "water" | "branched" | "ligand" | "ion" | "lipid" | "coarse" | "protein" | "nucleic" | "non-standard", "static"> | PD.NamedParams<Script, "script"> | PD.NamedParams<StructureElement.Bundle, "bundle"> | PD.NamedParams<Expression, "expression">;
     nullIfEmpty: boolean | undefined;
     label: string;
 }>>;

package/lib/mol-plugin-state/transforms/model.js CHANGED Viewed

@@ -185,7 +185,7 @@ var TrajectoryFromModelAndCoordinates = PluginStateTransform.BuiltIn({
                         return [4 /*yield*/, getTrajectory(ctx, dependencies[params.modelRef], coordinates)];
                     case 1:
                         trajectory = _a.sent();
-                        props = { label: 'Trajectory', description: trajectory.frameCount + " model" + (trajectory.frameCount === 1 ? '' : 's') };
+                        props = { label: 'Trajectory', description: "".concat(trajectory.frameCount, " model").concat(trajectory.frameCount === 1 ? '' : 's') };
                         return [2 /*return*/, new SO.Molecule.Trajectory(trajectory, props)];
                 }
             });
@@ -239,7 +239,7 @@ var TrajectoryFromBlob = PluginStateTransform.BuiltIn({
                         for (i = 0; i < models.length; i++) {
                             Model.TrajectoryInfo.set(models[i], { index: i, size: models.length });
                         }
-                        props = { label: 'Trajectory', description: models.length + " model" + (models.length === 1 ? '' : 's') };
+                        props = { label: 'Trajectory', description: "".concat(models.length, " model").concat(models.length === 1 ? '' : 's') };
                         return [2 /*return*/, new SO.Molecule.Trajectory(new ArrayTrajectory(models), props)];
                 }
             });
@@ -248,7 +248,7 @@ var TrajectoryFromBlob = PluginStateTransform.BuiltIn({
 });
 function trajectoryProps(trajectory) {
     var first = trajectory.representative;
-    return { label: "" + first.entry, description: trajectory.frameCount + " model" + (trajectory.frameCount === 1 ? '' : 's') };
+    return { label: "".concat(first.entry), description: "".concat(trajectory.frameCount, " model").concat(trajectory.frameCount === 1 ? '' : 's') };
 }
 var TrajectoryFromMmCif = PluginStateTransform.BuiltIn({
     name: 'trajectory-from-mmcif',
@@ -279,7 +279,7 @@ var TrajectoryFromMmCif = PluginStateTransform.BuiltIn({
                         header = params.blockHeader || a.data.blocks[0].header;
                         block = a.data.blocks.find(function (b) { return b.header === header; });
                         if (!block)
-                            throw new Error("Data block '" + [header] + "' not found.");
+                            throw new Error("Data block '".concat([header], "' not found."));
                         return [4 /*yield*/, trajectoryFromMmCIF(block).runInContext(ctx)];
                     case 1:
                         models = _a.sent();
@@ -537,7 +537,7 @@ var TrajectoryFromCifCore = PluginStateTransform.BuiltIn({
                         header = params.blockHeader || a.data.blocks[0].header;
                         block = a.data.blocks.find(function (b) { return b.header === header; });
                         if (!block)
-                            throw new Error("Data block '" + [header] + "' not found.");
+                            throw new Error("Data block '".concat([header], "' not found."));
                         return [4 /*yield*/, trajectoryFromCifCore(block).runInContext(ctx)];
                     case 1:
                         models = _a.sent();
@@ -578,8 +578,8 @@ var ModelFromTrajectory = PluginStateTransform.BuiltIn({
                         return [4 /*yield*/, Task.resolveInContext(a.data.getFrameAtIndex(modelIndex), ctx)];
                     case 1:
                         model = _a.sent();
-                        label = "Model " + (modelIndex + 1);
-                        description = a.data.frameCount === 1 ? undefined : "of " + a.data.frameCount;
+                        label = "Model ".concat(modelIndex + 1);
+                        description = a.data.frameCount === 1 ? undefined : "of ".concat(a.data.frameCount);
                         return [2 /*return*/, new SO.Molecule.Model(model, { label: label, description: description })];
                 }
             });
@@ -701,7 +701,7 @@ var TransformStructureConformation = PluginStateTransform.BuiltIn({
                 Mat4.transpose(transform, transform);
         }
         var s = Structure.transform(a.data, transform);
-        return new SO.Molecule.Structure(s, { label: a.label, description: a.description + " [Transformed]" });
+        return new SO.Molecule.Structure(s, { label: a.label, description: "".concat(a.description, " [Transformed]") });
     },
     dispose: function (_a) {
         var b = _a.b;
@@ -738,7 +738,7 @@ var StructureSelectionFromExpression = PluginStateTransform.BuiltIn({
         if (Sel.isEmpty(selection))
             return StateObject.Null;
         var s = Sel.unionStructure(selection);
-        var props = { label: "" + (params.label || 'Selection'), description: Structure.elementDescription(s) };
+        var props = { label: "".concat(params.label || 'Selection'), description: Structure.elementDescription(s) };
         return new SO.Molecule.Structure(s, props);
     },
     update: function (_a) {
@@ -790,7 +790,7 @@ var MultiStructureSelectionFromExpression = PluginStateTransform.BuiltIn({
             totalSize += StructureElement.Loci.size(loci);
         }
         cache.entries = entries;
-        var props = { label: "" + (params.label || 'Multi-selection'), description: params.selections.length + " source(s), " + totalSize + " element(s) total" };
+        var props = { label: "".concat(params.label || 'Multi-selection'), description: "".concat(params.selections.length, " source(s), ").concat(totalSize, " element(s) total") };
         return new SO.Molecule.Structure.Selections(selections, props);
     },
     update: function (_a) {
@@ -874,8 +874,8 @@ var MultiStructureSelectionFromExpression = PluginStateTransform.BuiltIn({
             return StateTransformer.UpdateResult.Unchanged;
         cache.entries = entries;
         b.data = selections;
-        b.label = "" + (newParams.label || 'Multi-selection');
-        b.description = selections.length + " source(s), " + totalSize + " element(s) total";
+        b.label = "".concat(newParams.label || 'Multi-selection');
+        b.description = "".concat(selections.length, " source(s), ").concat(totalSize, " element(s) total");
         return StateTransformer.UpdateResult.Updated;
     }
 });
@@ -894,7 +894,7 @@ var StructureSelectionFromScript = PluginStateTransform.BuiltIn({
         var _b = StructureQueryHelper.createAndRun(a.data, params.script), selection = _b.selection, entry = _b.entry;
         cache.entry = entry;
         var s = Sel.unionStructure(selection);
-        var props = { label: "" + (params.label || 'Selection'), description: Structure.elementDescription(s) };
+        var props = { label: "".concat(params.label || 'Selection'), description: Structure.elementDescription(s) };
         return new SO.Molecule.Structure(s, props);
     },
     update: function (_a) {
@@ -934,7 +934,7 @@ var StructureSelectionFromBundle = PluginStateTransform.BuiltIn({
         var s = StructureElement.Bundle.toStructure(params.bundle, a.data);
         if (s.elementCount === 0)
             return StateObject.Null;
-        var props = { label: "" + (params.label || 'Selection'), description: Structure.elementDescription(s) };
+        var props = { label: "".concat(params.label || 'Selection'), description: Structure.elementDescription(s) };
         return new SO.Molecule.Structure(s, props);
     },
     update: function (_a) {
@@ -952,7 +952,7 @@ var StructureSelectionFromBundle = PluginStateTransform.BuiltIn({
         var s = StructureElement.Bundle.toStructure(newParams.bundle, a.data);
         if (s.elementCount === 0)
             return StateTransformer.UpdateResult.Null;
-        b.label = "" + (newParams.label || 'Selection');
+        b.label = "".concat(newParams.label || 'Selection');
         b.description = Structure.elementDescription(s);
         b.data = s;
         return StateTransformer.UpdateResult.Updated;
@@ -1033,7 +1033,7 @@ var StructureComplexElement = PluginStateTransform.BuiltIn({
                 query = Queries.internal.spheres();
                 label = 'Coarse Spheres';
                 break;
-            default: throw new Error(params.type + " is a not valid complex element.");
+            default: throw new Error("".concat(params.type, " is a not valid complex element."));
         }
         var result = query(new QueryContext(a.data));
         var s = Sel.unionStructure(result);
@@ -1146,7 +1146,7 @@ function attachModelProps(model, ctx, taskCtx, params) {
                     return [3 /*break*/, 5];
                 case 4:
                     e_1 = _b.sent();
-                    ctx.log.warn("Error attaching model prop '" + name_2 + "': " + e_1);
+                    ctx.log.warn("Error attaching model prop '".concat(name_2, "': ").concat(e_1));
                     return [3 /*break*/, 5];
                 case 5: return [3 /*break*/, 7];
                 case 6:
@@ -1242,7 +1242,7 @@ function attachStructureProps(structure, ctx, taskCtx, params) {
                     return [3 /*break*/, 5];
                 case 4:
                     e_2 = _b.sent();
-                    ctx.log.warn("Error attaching structure prop '" + name_4 + "': " + e_2);
+                    ctx.log.warn("Error attaching structure prop '".concat(name_4, "': ").concat(e_2));
                     return [3 /*break*/, 5];
                 case 5: return [3 /*break*/, 7];
                 case 6: