molstar 2.4.0 → 2.4.1

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

@@ -17,11 +17,11 @@ export declare const PlyShapeParams: {
         red: string;
         green: string;
         blue: string;
-    }>, "vertex"> | PD.NamedParams<PD.Normalize<{
+    }>, "material"> | PD.NamedParams<PD.Normalize<{
         red: string;
         green: string;
         blue: string;
-    }>, "material">>;
+    }>, "vertex">>;
     grouping: PD.Mapped<PD.NamedParams<PD.Normalize<unknown>, "none"> | PD.NamedParams<PD.Normalize<{
         group: string;
     }>, "vertex">>;
@@ -31,7 +31,7 @@ export declare const PlyShapeParams: {
     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, {
@@ -41,11 +41,11 @@ export declare function shapeFromPly(source: PlyFile, params?: {}): Task<ShapePr
         red: string;
         green: string;
         blue: string;
-    }>, "vertex"> | PD.NamedParams<PD.Normalize<{
+    }>, "material"> | PD.NamedParams<PD.Normalize<{
         red: string;
         green: string;
         blue: string;
-    }>, "material">>;
+    }>, "vertex">>;
     grouping: PD.Mapped<PD.NamedParams<PD.Normalize<unknown>, "none"> | PD.NamedParams<PD.Normalize<{
         group: string;
     }>, "vertex">>;
@@ -55,5 +55,5 @@ export declare function shapeFromPly(source: PlyFile, params?: {}): Task<ShapePr
     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/structure/basic/schema.d.ts

@@ -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<"no" | "n" | "yes" | "y">;
-        nstd_monomer: import("../../../mol-data/db/column").Column.Schema.Aliased<"no" | "n" | "yes" | "y">;
+        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<"no" | "n" | "yes" | "y">;
+        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<"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" | "other" | "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<"no" | "n" | "yes" | "y">;
+        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>;
     };

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

@@ -19,29 +19,29 @@ export declare class ComponentBuilder {
     private getType;
     has(compId: string): boolean;
     get(compId: string): Table.Row<Pick<{
-        type: Column.Schema.Aliased<"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" | "other" | "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<"no" | "n" | "yes" | "y">;
+        mon_nstd_flag: Column.Schema.Aliased<"y" | "yes" | "no" | "n">;
         name: Column.Schema.Str;
         pdbx_synonyms: Column.Schema.List<string>;
-    }, "id" | "name" | "type">> | undefined;
+    }, "name" | "id" | "type">> | undefined;
     add(compId: string, index: number): Table.Row<Pick<{
-        type: Column.Schema.Aliased<"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" | "other" | "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<"no" | "n" | "yes" | "y">;
+        mon_nstd_flag: Column.Schema.Aliased<"y" | "yes" | "no" | "n">;
         name: Column.Schema.Str;
         pdbx_synonyms: Column.Schema.List<string>;
-    }, "id" | "name" | "type">>;
+    }, "name" | "id" | "type">>;
     getChemCompTable(): Table<{
-        type: Column.Schema.Aliased<"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" | "other" | "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<"no" | "n" | "yes" | "y">;
+        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-props/computed/interactions/hydrogen-bonds.d.ts

@@ -1,5 +1,5 @@
 /**
- * Copyright (c) 2019-2020 mol* contributors, licensed under MIT, See LICENSE file for more info.
+ * Copyright (c) 2019-2021 mol* contributors, licensed under MIT, See LICENSE file for more info.
  *
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
  * @author Fred Ludlow <Fred.Ludlow@astx.com>

package/lib/commonjs/mol-model-props/computed/interactions/hydrogen-bonds.js

@@ -1,6 +1,6 @@
 "use strict";
 /**
- * Copyright (c) 2019-2020 mol* contributors, licensed under MIT, See LICENSE file for more info.
+ * Copyright (c) 2019-2021 mol* contributors, licensed under MIT, See LICENSE file for more info.
  *
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
  * @author Fred Ludlow <Fred.Ludlow@astx.com>
@@ -49,10 +49,7 @@ function addUnitHydrogenDonors(structure, unit, builder) {
     var totalH = getUnitValenceModel(structure, unit).totalH;
     var elements = unit.elements;
     var _a = unit.model.atomicConformation, x = _a.x, y = _a.y, z = _a.z;
-    var elementAromaticRingIndices = unit.rings.elementAromaticRingIndices;
     for (var i = 0, il = elements.length; i < il; ++i) {
-        if (elementAromaticRingIndices.has(i))
-            continue;
         var element = (0, util_1.typeSymbol)(unit, i);
         if ((
         // include both nitrogen atoms in histidine due to
@@ -103,13 +100,10 @@ function addUnitHydrogenAcceptors(structure, unit, builder) {
     var _a = getUnitValenceModel(structure, unit), charge = _a.charge, implicitH = _a.implicitH, idealGeometry = _a.idealGeometry;
     var elements = unit.elements;
     var _b = unit.model.atomicConformation, x = _b.x, y = _b.y, z = _b.z;
-    var elementAromaticRingIndices = unit.rings.elementAromaticRingIndices;
     var add = function (i) {
         builder.add(5 /* HydrogenAcceptor */, 0 /* None */, x[elements[i]], y[elements[i]], z[elements[i]], i);
     };
     for (var i = 0, il = elements.length; i < il; ++i) {
-        if (elementAromaticRingIndices.has(i))
-            continue;
         var element = (0, util_1.typeSymbol)(unit, i);
         if (element === "O" /* O */) {
             // Basically assume all oxygen atoms are acceptors!

package/lib/commonjs/mol-model-props/computed/interactions/hydrogen-bonds.js.map

@@ -1 +1 @@
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package/lib/commonjs/mol-model-props/computed/representations/interactions-inter-unit-cylinder.d.ts

@@ -19,14 +19,14 @@ export declare const InteractionsInterUnitParams: {
     dashCap: PD.BooleanParam;
     stubCap: PD.BooleanParam;
     radialSegments: PD.Numeric;
-    unitKinds: PD.MultiSelect<"atomic" | "spheres" | "gaussians">;
+    unitKinds: PD.MultiSelect<"spheres" | "gaussians" | "atomic">;
     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 InteractionsInterUnitParams = typeof InteractionsInterUnitParams;
 export declare function InteractionsInterUnitVisual(materialId: number): ComplexVisual<InteractionsInterUnitParams>;

package/lib/commonjs/mol-model-props/computed/representations/interactions-intra-unit-cylinder.d.ts

@@ -19,14 +19,14 @@ export declare const InteractionsIntraUnitParams: {
     dashCap: PD.BooleanParam;
     stubCap: PD.BooleanParam;
     radialSegments: PD.Numeric;
-    unitKinds: PD.MultiSelect<"atomic" | "spheres" | "gaussians">;
+    unitKinds: PD.MultiSelect<"spheres" | "gaussians" | "atomic">;
     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 InteractionsIntraUnitParams = typeof InteractionsIntraUnitParams;
 export declare function InteractionsIntraUnitVisual(materialId: number): UnitsVisual<InteractionsIntraUnitParams>;

package/lib/commonjs/mol-model-props/computed/representations/interactions.d.ts

@@ -9,7 +9,7 @@ import { ThemeRegistryContext } from '../../../mol-theme/theme';
 import { Structure } from '../../../mol-model/structure';
 import { StructureRepresentation, StructureRepresentationProvider } from '../../../mol-repr/structure/representation';
 export declare const InteractionsParams: {
-    unitKinds: PD.MultiSelect<"atomic" | "spheres" | "gaussians">;
+    unitKinds: PD.MultiSelect<"spheres" | "gaussians" | "atomic">;
     sizeFactor: PD.Numeric;
     visuals: PD.MultiSelect<"intra-unit" | "inter-unit">;
     dashCount: PD.Numeric;
@@ -30,11 +30,11 @@ export declare const InteractionsParams: {
     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 InteractionsParams = typeof InteractionsParams;
 export declare function getInteractionParams(ctx: ThemeRegistryContext, structure: Structure): {
-    unitKinds: PD.MultiSelect<"atomic" | "spheres" | "gaussians">;
+    unitKinds: PD.MultiSelect<"spheres" | "gaussians" | "atomic">;
     sizeFactor: PD.Numeric;
     visuals: PD.MultiSelect<"intra-unit" | "inter-unit">;
     dashCount: PD.Numeric;
@@ -55,12 +55,12 @@ export declare function getInteractionParams(ctx: ThemeRegistryContext, structur
     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 InteractionRepresentation = StructureRepresentation<InteractionsParams>;
 export declare function InteractionRepresentation(ctx: RepresentationContext, getParams: RepresentationParamsGetter<Structure, InteractionsParams>): InteractionRepresentation;
 export declare const InteractionsRepresentationProvider: StructureRepresentationProvider<{
-    unitKinds: PD.MultiSelect<"atomic" | "spheres" | "gaussians">;
+    unitKinds: PD.MultiSelect<"spheres" | "gaussians" | "atomic">;
     sizeFactor: PD.Numeric;
     visuals: PD.MultiSelect<"intra-unit" | "inter-unit">;
     dashCount: PD.Numeric;
@@ -81,5 +81,5 @@ export declare const InteractionsRepresentationProvider: StructureRepresentation
     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">;
 }, "interactions">;

package/lib/commonjs/mol-model-props/integrative/cross-link-restraint/representation.d.ts

@@ -23,7 +23,7 @@ export declare const CrossLinkRestraintCylinderParams: {
     dashCap: PD.BooleanParam;
     stubCap: PD.BooleanParam;
     radialSegments: PD.Numeric;
-    unitKinds: PD.MultiSelect<"atomic" | "spheres" | "gaussians">;
+    unitKinds: PD.MultiSelect<"spheres" | "gaussians" | "atomic">;
     includeParent: PD.BooleanParam;
     doubleSided: PD.BooleanParam;
     flipSided: PD.BooleanParam;
@@ -31,7 +31,7 @@ export declare const CrossLinkRestraintCylinderParams: {
     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 CrossLinkRestraintCylinderParams = typeof CrossLinkRestraintCylinderParams;
 export declare function CrossLinkRestraintVisual(materialId: number): ComplexVisual<CrossLinkRestraintCylinderParams>;
@@ -48,7 +48,7 @@ export declare const CrossLinkRestraintParams: {
     dashCap: PD.BooleanParam;
     stubCap: PD.BooleanParam;
     radialSegments: PD.Numeric;
-    unitKinds: PD.MultiSelect<"atomic" | "spheres" | "gaussians">;
+    unitKinds: PD.MultiSelect<"spheres" | "gaussians" | "atomic">;
     includeParent: PD.BooleanParam;
     doubleSided: PD.BooleanParam;
     flipSided: PD.BooleanParam;
@@ -56,7 +56,7 @@ export declare const CrossLinkRestraintParams: {
     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 CrossLinkRestraintParams = typeof CrossLinkRestraintParams;
 export declare function getCrossLinkRestraintParams(ctx: ThemeRegistryContext, structure: Structure): {
@@ -72,7 +72,7 @@ export declare function getCrossLinkRestraintParams(ctx: ThemeRegistryContext, s
     dashCap: PD.BooleanParam;
     stubCap: PD.BooleanParam;
     radialSegments: PD.Numeric;
-    unitKinds: PD.MultiSelect<"atomic" | "spheres" | "gaussians">;
+    unitKinds: PD.MultiSelect<"spheres" | "gaussians" | "atomic">;
     includeParent: PD.BooleanParam;
     doubleSided: PD.BooleanParam;
     flipSided: PD.BooleanParam;
@@ -80,7 +80,7 @@ export declare function getCrossLinkRestraintParams(ctx: ThemeRegistryContext, 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 CrossLinkRestraintRepresentation = StructureRepresentation<CrossLinkRestraintParams>;
 export declare function CrossLinkRestraintRepresentation(ctx: RepresentationContext, getParams: RepresentationParamsGetter<Structure, CrossLinkRestraintParams>): CrossLinkRestraintRepresentation;
@@ -97,7 +97,7 @@ export declare const CrossLinkRestraintRepresentationProvider: StructureRepresen
     dashCap: PD.BooleanParam;
     stubCap: PD.BooleanParam;
     radialSegments: PD.Numeric;
-    unitKinds: PD.MultiSelect<"atomic" | "spheres" | "gaussians">;
+    unitKinds: PD.MultiSelect<"spheres" | "gaussians" | "atomic">;
     includeParent: PD.BooleanParam;
     doubleSided: PD.BooleanParam;
     flipSided: PD.BooleanParam;
@@ -105,5 +105,5 @@ export declare const CrossLinkRestraintRepresentationProvider: StructureRepresen
     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">;
 }, CrossLinkRestraint.Tag>;

package/lib/commonjs/mol-plugin/behavior/behavior.d.ts

@@ -114,7 +114,7 @@ declare namespace PluginBehavior {
     export const CreateCategory: StateTransformer<Root, Category, ParamDefinition.Normalize<{
         label: string;
     }>>;
-    export function getCategoryId(t: StateTransformer): "representation" | "custom-props" | "common" | "interaction" | "misc";
+    export function getCategoryId(t: StateTransformer): "common" | "representation" | "interaction" | "custom-props" | "misc";
     export function create<P>(params: CreateParams<P>): StateTransformer<Category, Behavior, P>;
     export function simpleCommandHandler<T>(cmd: PluginCommand<T>, action: (data: T, ctx: PluginContext) => void | Promise<void>): {
         new (ctx: PluginContext): {

package/lib/commonjs/mol-plugin/behavior/dynamic/representation.d.ts

@@ -12,7 +12,7 @@ export declare const HighlightLoci: import("../../../mol-state/transformer").Sta
         hoverHighlightOnly: Binding;
         hoverHighlightOnlyExtend: Binding;
     }>;
-    ignore: PD.Value<("every-loci" | "empty-loci" | "data-loci" | "element-loci" | "structure-loci" | "bond-loci" | "shape-loci" | "group-loci" | "volume-loci" | "isosurface-loci" | "cell-loci")[]>;
+    ignore: PD.Value<("element-loci" | "structure-loci" | "bond-loci" | "volume-loci" | "isosurface-loci" | "cell-loci" | "shape-loci" | "group-loci" | "every-loci" | "empty-loci" | "data-loci")[]>;
     preferAtoms: PD.BooleanParam;
     mark: PD.BooleanParam;
 }>>;
@@ -25,7 +25,7 @@ export declare const SelectLoci: import("../../../mol-state/transformer").StateT
         clickDeselect: Binding;
         clickDeselectAllOnEmpty: Binding;
     }>;
-    ignore: PD.Value<("every-loci" | "empty-loci" | "data-loci" | "element-loci" | "structure-loci" | "bond-loci" | "shape-loci" | "group-loci" | "volume-loci" | "isosurface-loci" | "cell-loci")[]>;
+    ignore: PD.Value<("element-loci" | "structure-loci" | "bond-loci" | "volume-loci" | "isosurface-loci" | "cell-loci" | "shape-loci" | "group-loci" | "every-loci" | "empty-loci" | "data-loci")[]>;
     preferAtoms: PD.BooleanParam;
     mark: PD.BooleanParam;
 }>>;

package/lib/commonjs/mol-plugin/behavior/dynamic/selection/structure-focus-representation.d.ts

@@ -18,7 +18,7 @@ declare const StructureFocusRepresentationParams: (plugin: PluginContext) => {
     nciParams: PD.Group<PD.Normalize<{
         [x: string]: any;
     }>>;
-    components: PD.MultiSelect<"target" | "interactions" | "surroundings">;
+    components: PD.MultiSelect<"target" | "surroundings" | "interactions">;
     excludeTargetFromSurroundings: PD.BooleanParam;
     ignoreHydrogens: PD.BooleanParam;
 };

package/lib/commonjs/mol-plugin/behavior/dynamic/volume-streaming/behavior.d.ts

@@ -49,13 +49,13 @@ export declare namespace VolumeStreaming {
         channelParams?: DefaultChannelParams;
     }): {
         entry: PD.Mapped<PD.NamedParams<PD.Values<{
-            view: PD.Mapped<PD.NamedParams<PD.Normalize<{}>, "cell"> | PD.NamedParams<PD.Normalize<{
+            view: PD.Mapped<PD.NamedParams<PD.Normalize<{
                 radius: number;
                 selectionDetailLevel: number;
                 isSelection: boolean;
                 bottomLeft: Vec3;
                 topRight: Vec3;
-            }>, "auto"> | PD.NamedParams<PD.Normalize<{}>, "off"> | PD.NamedParams<PD.Normalize<{
+            }>, "auto"> | PD.NamedParams<PD.Normalize<{}>, "cell"> | PD.NamedParams<PD.Normalize<{}>, "off"> | PD.NamedParams<PD.Normalize<{
                 bottomLeft: Vec3;
                 topRight: Vec3;
             }>, "box"> | PD.NamedParams<PD.Normalize<{
@@ -81,13 +81,13 @@ export declare namespace VolumeStreaming {
         structure?: Structure;
         channelParams?: DefaultChannelParams;
     }): {
-        view: PD.Mapped<PD.NamedParams<PD.Normalize<{}>, "cell"> | PD.NamedParams<PD.Normalize<{
+        view: PD.Mapped<PD.NamedParams<PD.Normalize<{
             radius: number;
             selectionDetailLevel: number;
             isSelection: boolean;
             bottomLeft: Vec3;
             topRight: Vec3;
-        }>, "auto"> | PD.NamedParams<PD.Normalize<{}>, "off"> | PD.NamedParams<PD.Normalize<{
+        }>, "auto"> | PD.NamedParams<PD.Normalize<{}>, "cell"> | PD.NamedParams<PD.Normalize<{}>, "off"> | PD.NamedParams<PD.Normalize<{
             bottomLeft: Vec3;
             topRight: Vec3;
         }>, "box"> | PD.NamedParams<PD.Normalize<{

package/lib/commonjs/mol-plugin/behavior/dynamic/volume-streaming/transformers.d.ts

@@ -38,13 +38,13 @@ export { CreateVolumeStreamingBehavior };
 declare type CreateVolumeStreamingBehavior = typeof CreateVolumeStreamingBehavior;
 declare const CreateVolumeStreamingBehavior: StateTransformer<VolumeServerInfo, VolumeStreaming, PD.Normalize<{
     entry: PD.NamedParams<PD.Values<{
-        view: PD.Mapped<PD.NamedParams<PD.Normalize<{}>, "cell"> | PD.NamedParams<PD.Normalize<{
+        view: PD.Mapped<PD.NamedParams<PD.Normalize<{
             radius: any;
             selectionDetailLevel: any;
             isSelection: any;
             bottomLeft: any;
             topRight: any;
-        }>, "auto"> | PD.NamedParams<PD.Normalize<{}>, "off"> | PD.NamedParams<PD.Normalize<{
+        }>, "auto"> | PD.NamedParams<PD.Normalize<{}>, "cell"> | PD.NamedParams<PD.Normalize<{}>, "off"> | PD.NamedParams<PD.Normalize<{
             bottomLeft: any;
             topRight: any;
         }>, "box"> | PD.NamedParams<PD.Normalize<{

package/lib/commonjs/mol-plugin/commands.d.ts

@@ -259,13 +259,13 @@ export declare const PluginCommands: {
                     selectStrength: number;
                     markerPriority: number;
                     xrayEdgeFalloff: number;
-                    style: import("../mol-util/param-definition").ParamDefinition.NamedParams<import("../mol-util/param-definition").ParamDefinition.Normalize<unknown>, "metallic"> | import("../mol-util/param-definition").ParamDefinition.NamedParams<import("../mol-util/param-definition").ParamDefinition.Normalize<{
+                    style: import("../mol-util/param-definition").ParamDefinition.NamedParams<import("../mol-util/param-definition").ParamDefinition.Normalize<unknown>, "flat"> | import("../mol-util/param-definition").ParamDefinition.NamedParams<import("../mol-util/param-definition").ParamDefinition.Normalize<unknown>, "metallic"> | import("../mol-util/param-definition").ParamDefinition.NamedParams<import("../mol-util/param-definition").ParamDefinition.Normalize<{
                         lightIntensity: any;
                         ambientIntensity: any;
                         metalness: any;
                         roughness: any;
                         reflectivity: any;
-                    }>, "custom"> | import("../mol-util/param-definition").ParamDefinition.NamedParams<import("../mol-util/param-definition").ParamDefinition.Normalize<unknown>, "matte"> | import("../mol-util/param-definition").ParamDefinition.NamedParams<import("../mol-util/param-definition").ParamDefinition.Normalize<unknown>, "flat"> | import("../mol-util/param-definition").ParamDefinition.NamedParams<import("../mol-util/param-definition").ParamDefinition.Normalize<unknown>, "glossy"> | import("../mol-util/param-definition").ParamDefinition.NamedParams<import("../mol-util/param-definition").ParamDefinition.Normalize<unknown>, "plastic">;
+                    }>, "custom"> | import("../mol-util/param-definition").ParamDefinition.NamedParams<import("../mol-util/param-definition").ParamDefinition.Normalize<unknown>, "matte"> | import("../mol-util/param-definition").ParamDefinition.NamedParams<import("../mol-util/param-definition").ParamDefinition.Normalize<unknown>, "glossy"> | import("../mol-util/param-definition").ParamDefinition.NamedParams<import("../mol-util/param-definition").ParamDefinition.Normalize<unknown>, "plastic">;
                     clip: import("../mol-util/param-definition").ParamDefinition.Normalize<{
                         variant: any;
                         objects: any;

package/lib/commonjs/mol-plugin/config.d.ts

@@ -47,7 +47,7 @@ export declare const PluginConfig: {
         ShowAnimation: PluginConfigItem<boolean>;
     };
     Download: {
-        DefaultPdbProvider: PluginConfigItem<"pdbe" | "rcsb">;
+        DefaultPdbProvider: PluginConfigItem<"rcsb" | "pdbe">;
         DefaultEmdbProvider: PluginConfigItem<EmdbDownloadProvider>;
     };
     Structure: {

package/lib/commonjs/mol-plugin/layout.d.ts

@@ -12,10 +12,10 @@ export declare const PluginLayoutStateParams: {
     isExpanded: PD.BooleanParam;
     showControls: PD.BooleanParam;
     regionState: PD.Group<PD.Normalize<{
-        left: "full" | "collapsed" | "hidden";
-        top: "full" | "hidden";
-        right: "full" | "hidden";
-        bottom: "full" | "hidden";
+        left: "hidden" | "full" | "collapsed";
+        top: "hidden" | "full";
+        right: "hidden" | "full";
+        bottom: "hidden" | "full";
     }>>;
     controlsDisplay: PD.Value<PluginLayoutControlsDisplay>;
 };

package/lib/commonjs/mol-plugin/util/viewport-screenshot.d.ts

@@ -37,7 +37,7 @@ declare class ViewportScreenshotHelper extends PluginComponent {
             flipSided: boolean;
             flatShaded: boolean;
             xrayShaded: boolean;
-            quality: "custom" | "auto" | "highest" | "higher" | "high" | "medium" | "low" | "lower" | "lowest";
+            quality: "auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest";
         }>, "on">>;
     };
     readonly behaviors: {
@@ -58,7 +58,7 @@ declare class ViewportScreenshotHelper extends PluginComponent {
                 flipSided: boolean;
                 flatShaded: boolean;
                 xrayShaded: boolean;
-                quality: "custom" | "auto" | "highest" | "higher" | "high" | "medium" | "low" | "lower" | "lowest";
+                quality: "auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest";
             }>, "on">>;
         }>>;
         cropParams: import("rxjs").BehaviorSubject<{
@@ -87,7 +87,7 @@ declare class ViewportScreenshotHelper extends PluginComponent {
             flipSided: boolean;
             flatShaded: boolean;
             xrayShaded: boolean;
-            quality: "custom" | "auto" | "highest" | "higher" | "high" | "medium" | "low" | "lower" | "lowest";
+            quality: "auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest";
         }>, "on">>;
     }>;
     get cropParams(): {

package/lib/commonjs/mol-plugin-state/actions/structure.d.ts

@@ -9,10 +9,10 @@ import { ParamDefinition as PD } from '../../mol-util/param-definition';
 import { PluginStateObject } from '../objects';
 export declare const PdbDownloadProvider: {
     rcsb: PD.Group<PD.Normalize<{
-        encoding: "cif" | "bcif";
+        encoding: "bcif" | "cif";
     }>>;
     pdbe: PD.Group<PD.Normalize<{
-        variant: "updated-bcif" | "updated" | "updtaed-bcif" | "archival";
+        variant: "updated" | "updated-bcif" | "updtaed-bcif" | "archival";
     }>>;
 };
 export declare type PdbDownloadProvider = keyof typeof PdbDownloadProvider;

package/lib/commonjs/mol-plugin-state/animation/built-in/model-index.d.ts

@@ -14,10 +14,10 @@ export declare const AnimateModelIndex: PluginStateAnimation<{
     duration: PD.NamedParams<PD.Normalize<{
         durationInS: any;
     }>, "fixed"> | PD.NamedParams<PD.Normalize<{
-        targetFps: any;
-    }>, "computed"> | PD.NamedParams<PD.Normalize<{
         maxFps: any;
-    }>, "sequential">;
+    }>, "sequential"> | PD.NamedParams<PD.Normalize<{
+        targetFps: any;
+    }>, "computed">;
 }, {
     palindromeDirections?: {
         [id: string]: 1 | -1 | undefined;

package/lib/commonjs/mol-plugin-state/builder/structure/hierarchy-preset.d.ts

@@ -48,16 +48,16 @@ export declare const PresetTrajectoryHierarchy: {
         showUnitcell: boolean | undefined;
         structure: PD.NamedParams<PD.Normalize<{
             dynamicBonds: any;
+        }>, "auto"> | PD.NamedParams<PD.Normalize<{
+            dynamicBonds: any;
+            id: any;
+        }>, "assembly"> | PD.NamedParams<PD.Normalize<{
+            dynamicBonds: any;
             ijkMin: any;
             ijkMax: any;
         }>, "symmetry"> | PD.NamedParams<PD.Normalize<{
             dynamicBonds: any;
         }>, "model"> | PD.NamedParams<PD.Normalize<{
-            dynamicBonds: any;
-            id: any;
-        }>, "assembly"> | PD.NamedParams<PD.Normalize<{
-            dynamicBonds: any;
-        }>, "auto"> | PD.NamedParams<PD.Normalize<{
             dynamicBonds: any;
             radius: any;
         }>, "symmetry-mates"> | PD.NamedParams<PD.Normalize<{