molstar 4.2.0 → 4.4.0

package/lib/commonjs/mol-repr/structure/visual/util/nucleotide.d.ts

@@ -23,39 +23,39 @@ export declare function getNucleotideBaseType(unit: Unit.Atomic, residueIndex: R
     isPyrimidine: boolean;
 };
 export declare function createNucleicIndices(): {
-    trace: -1 | ElementIndex;
-    N1: -1 | ElementIndex;
-    C2: -1 | ElementIndex;
-    N3: -1 | ElementIndex;
-    C4: -1 | ElementIndex;
-    C5: -1 | ElementIndex;
-    C6: -1 | ElementIndex;
-    N7: -1 | ElementIndex;
-    C8: -1 | ElementIndex;
-    N9: -1 | ElementIndex;
-    C1_1: -1 | ElementIndex;
-    C2_1: -1 | ElementIndex;
-    C3_1: -1 | ElementIndex;
-    C4_1: -1 | ElementIndex;
-    O4_1: -1 | ElementIndex;
+    trace: ElementIndex | -1;
+    N1: ElementIndex | -1;
+    C2: ElementIndex | -1;
+    N3: ElementIndex | -1;
+    C4: ElementIndex | -1;
+    C5: ElementIndex | -1;
+    C6: ElementIndex | -1;
+    N7: ElementIndex | -1;
+    C8: ElementIndex | -1;
+    N9: ElementIndex | -1;
+    C1_1: ElementIndex | -1;
+    C2_1: ElementIndex | -1;
+    C3_1: ElementIndex | -1;
+    C4_1: ElementIndex | -1;
+    O4_1: ElementIndex | -1;
 };
 export type NucleicIndices = ReturnType<typeof createNucleicIndices>;
 export declare function setPurinIndices(idx: NucleicIndices, unit: Unit.Atomic, residueIndex: ResidueIndex): {
-    trace: -1 | ElementIndex;
-    N1: -1 | ElementIndex;
-    C2: -1 | ElementIndex;
-    N3: -1 | ElementIndex;
-    C4: -1 | ElementIndex;
-    C5: -1 | ElementIndex;
-    C6: -1 | ElementIndex;
-    N7: -1 | ElementIndex;
-    C8: -1 | ElementIndex;
-    N9: -1 | ElementIndex;
-    C1_1: -1 | ElementIndex;
-    C2_1: -1 | ElementIndex;
-    C3_1: -1 | ElementIndex;
-    C4_1: -1 | ElementIndex;
-    O4_1: -1 | ElementIndex;
+    trace: ElementIndex | -1;
+    N1: ElementIndex | -1;
+    C2: ElementIndex | -1;
+    N3: ElementIndex | -1;
+    C4: ElementIndex | -1;
+    C5: ElementIndex | -1;
+    C6: ElementIndex | -1;
+    N7: ElementIndex | -1;
+    C8: ElementIndex | -1;
+    N9: ElementIndex | -1;
+    C1_1: ElementIndex | -1;
+    C2_1: ElementIndex | -1;
+    C3_1: ElementIndex | -1;
+    C4_1: ElementIndex | -1;
+    O4_1: ElementIndex | -1;
 };
 export declare function hasPurinIndices(idx: NucleicIndices): idx is NucleicIndices & {
     trace: ElementIndex;
@@ -70,21 +70,21 @@ export declare function hasPurinIndices(idx: NucleicIndices): idx is NucleicIndi
     N9: ElementIndex;
 };
 export declare function setPyrimidineIndices(idx: NucleicIndices, unit: Unit.Atomic, residueIndex: ResidueIndex): {
-    trace: -1 | ElementIndex;
-    N1: -1 | ElementIndex;
-    C2: -1 | ElementIndex;
-    N3: -1 | ElementIndex;
-    C4: -1 | ElementIndex;
-    C5: -1 | ElementIndex;
-    C6: -1 | ElementIndex;
-    N7: -1 | ElementIndex;
-    C8: -1 | ElementIndex;
-    N9: -1 | ElementIndex;
-    C1_1: -1 | ElementIndex;
-    C2_1: -1 | ElementIndex;
-    C3_1: -1 | ElementIndex;
-    C4_1: -1 | ElementIndex;
-    O4_1: -1 | ElementIndex;
+    trace: ElementIndex | -1;
+    N1: ElementIndex | -1;
+    C2: ElementIndex | -1;
+    N3: ElementIndex | -1;
+    C4: ElementIndex | -1;
+    C5: ElementIndex | -1;
+    C6: ElementIndex | -1;
+    N7: ElementIndex | -1;
+    C8: ElementIndex | -1;
+    N9: ElementIndex | -1;
+    C1_1: ElementIndex | -1;
+    C2_1: ElementIndex | -1;
+    C3_1: ElementIndex | -1;
+    C4_1: ElementIndex | -1;
+    O4_1: ElementIndex | -1;
 };
 export declare function hasPyrimidineIndices(idx: NucleicIndices): idx is NucleicIndices & {
     trace: ElementIndex;
@@ -96,21 +96,21 @@ export declare function hasPyrimidineIndices(idx: NucleicIndices): idx is Nuclei
     C6: ElementIndex;
 };
 export declare function setSugarIndices(idx: NucleicIndices, unit: Unit.Atomic, residueIndex: ResidueIndex): {
-    trace: -1 | ElementIndex;
-    N1: -1 | ElementIndex;
-    C2: -1 | ElementIndex;
-    N3: -1 | ElementIndex;
-    C4: -1 | ElementIndex;
-    C5: -1 | ElementIndex;
-    C6: -1 | ElementIndex;
-    N7: -1 | ElementIndex;
-    C8: -1 | ElementIndex;
-    N9: -1 | ElementIndex;
-    C1_1: -1 | ElementIndex;
-    C2_1: -1 | ElementIndex;
-    C3_1: -1 | ElementIndex;
-    C4_1: -1 | ElementIndex;
-    O4_1: -1 | ElementIndex;
+    trace: ElementIndex | -1;
+    N1: ElementIndex | -1;
+    C2: ElementIndex | -1;
+    N3: ElementIndex | -1;
+    C4: ElementIndex | -1;
+    C5: ElementIndex | -1;
+    C6: ElementIndex | -1;
+    N7: ElementIndex | -1;
+    C8: ElementIndex | -1;
+    N9: ElementIndex | -1;
+    C1_1: ElementIndex | -1;
+    C2_1: ElementIndex | -1;
+    C3_1: ElementIndex | -1;
+    C4_1: ElementIndex | -1;
+    O4_1: ElementIndex | -1;
 };
 export declare function hasSugarIndices(idx: NucleicIndices): idx is NucleicIndices & {
     trace: ElementIndex;

package/lib/commonjs/mol-repr/structure/visual/util/nucleotide.js

@@ -5,7 +5,17 @@
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
  */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.hasSugarIndices = exports.setSugarIndices = exports.hasPyrimidineIndices = exports.setPyrimidineIndices = exports.hasPurinIndices = exports.setPurinIndices = exports.createNucleicIndices = exports.getNucleotideBaseType = exports.eachNucleotideElement = exports.getNucleotideElementLoci = exports.NucleotideLocationIterator = void 0;
+exports.NucleotideLocationIterator = void 0;
+exports.getNucleotideElementLoci = getNucleotideElementLoci;
+exports.eachNucleotideElement = eachNucleotideElement;
+exports.getNucleotideBaseType = getNucleotideBaseType;
+exports.createNucleicIndices = createNucleicIndices;
+exports.setPurinIndices = setPurinIndices;
+exports.hasPurinIndices = hasPurinIndices;
+exports.setPyrimidineIndices = setPyrimidineIndices;
+exports.hasPyrimidineIndices = hasPyrimidineIndices;
+exports.setSugarIndices = setSugarIndices;
+exports.hasSugarIndices = hasSugarIndices;
 const structure_1 = require("../../../../mol-model/structure");
 const loci_1 = require("../../../../mol-model/loci");
 const location_iterator_1 = require("../../../../mol-geo/util/location-iterator");
@@ -43,7 +53,6 @@ function getNucleotideElementLoci(pickingId, structureGroup, id) {
     }
     return loci_1.EmptyLoci;
 }
-exports.getNucleotideElementLoci = getNucleotideElementLoci;
 function selectNuclotideElements(u) { return u.nucleotideElements; }
 /**
  * Mark a nucleotide element (e.g. part of a cartoon block)
@@ -73,7 +82,6 @@ function eachNucleotideElement(loci, structureGroup, apply) {
     }
     return changed;
 }
-exports.eachNucleotideElement = eachNucleotideElement;
 //
 const pC4 = (0, vec3_1.Vec3)();
 const pN9 = (0, vec3_1.Vec3)();
@@ -97,7 +105,6 @@ function getNucleotideBaseType(unit, residueIndex) {
     }
     return { isPurine, isPyrimidine };
 }
-exports.getNucleotideBaseType = getNucleotideBaseType;
 function createNucleicIndices() {
     return {
         trace: -1,
@@ -117,7 +124,6 @@ function createNucleicIndices() {
         O4_1: -1,
     };
 }
-exports.createNucleicIndices = createNucleicIndices;
 function setPurinIndices(idx, unit, residueIndex) {
     const atomicIndex = unit.model.atomicHierarchy.index;
     const { traceElementIndex } = unit.model.atomicHierarchy.derived.residue;
@@ -141,11 +147,9 @@ function setPurinIndices(idx, unit, residueIndex) {
     idx.N9 = atomicIndex.findAtomOnResidue(residueIndex, 'N9');
     return idx;
 }
-exports.setPurinIndices = setPurinIndices;
 function hasPurinIndices(idx) {
     return idx.trace !== -1 && idx.N1 !== -1 && idx.C2 !== -1 && idx.N3 !== -1 && idx.C4 !== -1 && idx.C5 !== -1 && idx.C6 !== -1 && idx.N7 !== -1 && idx.C8 !== -1 && idx.N9 !== -1;
 }
-exports.hasPurinIndices = hasPurinIndices;
 function setPyrimidineIndices(idx, unit, residueIndex) {
     const atomicIndex = unit.model.atomicHierarchy.index;
     const { traceElementIndex } = unit.model.atomicHierarchy.derived.residue;
@@ -162,11 +166,9 @@ function setPyrimidineIndices(idx, unit, residueIndex) {
     idx.C6 = atomicIndex.findAtomOnResidue(residueIndex, 'C6');
     return idx;
 }
-exports.setPyrimidineIndices = setPyrimidineIndices;
 function hasPyrimidineIndices(idx) {
     return idx.trace !== -1 && idx.N1 !== -1 && idx.C2 !== -1 && idx.N3 !== -1 && idx.C4 !== -1 && idx.C5 !== -1 && idx.C6 !== -1;
 }
-exports.hasPyrimidineIndices = hasPyrimidineIndices;
 function setSugarIndices(idx, unit, residueIndex) {
     const atomicIndex = unit.model.atomicHierarchy.index;
     const { traceElementIndex } = unit.model.atomicHierarchy.derived.residue;
@@ -178,8 +180,6 @@ function setSugarIndices(idx, unit, residueIndex) {
     idx.O4_1 = atomicIndex.findAtomOnResidue(residueIndex, "O4'");
     return idx;
 }
-exports.setSugarIndices = setSugarIndices;
 function hasSugarIndices(idx) {
     return idx.trace !== -1 && idx.C1_1 !== -1 && idx.C2_1 !== -1 && idx.C3_1 !== -1 && idx.C4_1 !== -1 && idx.O4_1 !== -1;
 }
-exports.hasSugarIndices = hasSugarIndices;

package/lib/commonjs/mol-repr/structure/visual/util/polymer/backbone.js

@@ -1,6 +1,8 @@
 "use strict";
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.eachAtomicPolymerBackboneElement = exports.eachPolymerBackboneElement = exports.eachPolymerBackboneLink = void 0;
+exports.eachPolymerBackboneLink = eachPolymerBackboneLink;
+exports.eachPolymerBackboneElement = eachPolymerBackboneElement;
+exports.eachAtomicPolymerBackboneElement = eachAtomicPolymerBackboneElement;
 /**
  * Copyright (c) 2021 mol* contributors, licensed under MIT, See LICENSE file for more info.
  *
@@ -17,7 +19,6 @@ function eachPolymerBackboneLink(unit, callback) {
             return eachCoarsePolymerBackboneLink(unit, callback);
     }
 }
-exports.eachPolymerBackboneLink = eachPolymerBackboneLink;
 function eachAtomicPolymerBackboneLink(unit, callback) {
     const cyclicPolymerMap = unit.model.atomicRanges.cyclicPolymerMap;
     const polymerIt = sorted_ranges_1.SortedRanges.transientSegments((0, polymer_1.getPolymerRanges)(unit), unit.elements);
@@ -84,7 +85,6 @@ function eachPolymerBackboneElement(unit, callback) {
             return eachCoarsePolymerBackboneElement(unit, callback);
     }
 }
-exports.eachPolymerBackboneElement = eachPolymerBackboneElement;
 function eachAtomicPolymerBackboneElement(unit, callback) {
     const polymerIt = sorted_ranges_1.SortedRanges.transientSegments((0, polymer_1.getPolymerRanges)(unit), unit.elements);
     const residueIt = int_1.Segmentation.transientSegments(unit.model.atomicHierarchy.residueAtomSegments, unit.elements);
@@ -99,7 +99,6 @@ function eachAtomicPolymerBackboneElement(unit, callback) {
         }
     }
 }
-exports.eachAtomicPolymerBackboneElement = eachAtomicPolymerBackboneElement;
 function eachCoarsePolymerBackboneElement(unit, callback) {
     const polymerIt = sorted_ranges_1.SortedRanges.transientSegments((0, polymer_1.getPolymerRanges)(unit), unit.elements);
     const { elements } = unit;

package/lib/commonjs/mol-repr/structure/visual/util/polymer/curve-segment.js

@@ -5,7 +5,11 @@
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
  */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.interpolateSizes = exports.interpolateNormals = exports.interpolatePointsAndTangents = exports.interpolateCurveSegment = exports.createCurveSegmentState = void 0;
+exports.createCurveSegmentState = createCurveSegmentState;
+exports.interpolateCurveSegment = interpolateCurveSegment;
+exports.interpolatePointsAndTangents = interpolatePointsAndTangents;
+exports.interpolateNormals = interpolateNormals;
+exports.interpolateSizes = interpolateSizes;
 const linear_algebra_1 = require("../../../../../mol-math/linear-algebra");
 const interpolate_1 = require("../../../../../mol-math/interpolate");
 // avoiding namespace lookup improved performance in Chrome (Aug 2020)
@@ -34,12 +38,10 @@ function createCurveSegmentState(linearSegments) {
         linearSegments
     };
 }
-exports.createCurveSegmentState = createCurveSegmentState;
 function interpolateCurveSegment(state, controls, tension, shift) {
     interpolatePointsAndTangents(state, controls, tension, shift);
     interpolateNormals(state, controls);
 }
-exports.interpolateCurveSegment = interpolateCurveSegment;
 const tanA = (0, linear_algebra_1.Vec3)();
 const tanB = (0, linear_algebra_1.Vec3)();
 const curvePoint = (0, linear_algebra_1.Vec3)();
@@ -68,7 +70,6 @@ function interpolatePointsAndTangents(state, controls, tension, shift) {
         v3toArray(tangentVec, tangentVectors, j * 3);
     }
 }
-exports.interpolatePointsAndTangents = interpolatePointsAndTangents;
 const tmpNormal = (0, linear_algebra_1.Vec3)();
 const tangentVec = (0, linear_algebra_1.Vec3)();
 const normalVec = (0, linear_algebra_1.Vec3)();
@@ -115,7 +116,6 @@ function interpolateNormals(state, controls) {
         v3toArray(binormalVec, binormalVectors, i * 3);
     }
 }
-exports.interpolateNormals = interpolateNormals;
 function interpolateSizes(state, w0, w1, w2, h0, h1, h2, shift) {
     const { widthValues, heightValues, linearSegments } = state;
     const shift1 = 1 - shift;
@@ -131,4 +131,3 @@ function interpolateSizes(state, w0, w1, w2, h0, h1, h2, shift) {
         }
     }
 }
-exports.interpolateSizes = interpolateSizes;

package/lib/commonjs/mol-repr/structure/visual/util/polymer/gap-iterator.js

@@ -5,7 +5,8 @@
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
  */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.CoarsePolymerGapIterator = exports.AtomicPolymerGapIterator = exports.PolymerGapIterator = void 0;
+exports.CoarsePolymerGapIterator = exports.AtomicPolymerGapIterator = void 0;
+exports.PolymerGapIterator = PolymerGapIterator;
 const structure_1 = require("../../../../../mol-model/structure");
 const sorted_ranges_1 = require("../../../../../mol-data/int/sorted-ranges");
 const polymer_1 = require("../polymer");
@@ -18,7 +19,6 @@ function PolymerGapIterator(structure, unit) {
             return new CoarsePolymerGapIterator(structure, unit);
     }
 }
-exports.PolymerGapIterator = PolymerGapIterator;
 function createPolymerGapPair(structure, unit) {
     return {
         centerA: structure_1.StructureElement.Location.create(structure, unit),

package/lib/commonjs/mol-repr/structure/visual/util/polymer/trace-iterator.js

@@ -5,7 +5,8 @@
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
  */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.CoarsePolymerTraceIterator = exports.AtomicPolymerTraceIterator = exports.PolymerTraceIterator = void 0;
+exports.CoarsePolymerTraceIterator = exports.AtomicPolymerTraceIterator = void 0;
+exports.PolymerTraceIterator = PolymerTraceIterator;
 const structure_1 = require("../../../../../mol-model/structure");
 const int_1 = require("../../../../../mol-data/int");
 const types_1 = require("../../../../../mol-model/structure/model/types");
@@ -32,7 +33,6 @@ function PolymerTraceIterator(unit, structure, options = {}) {
             return new CoarsePolymerTraceIterator(unit, structure);
     }
 }
-exports.PolymerTraceIterator = PolymerTraceIterator;
 const SecStrucTypeNA = types_1.SecondaryStructureType.create(536870912 /* SecondaryStructureType.Flag.NA */);
 function createPolymerTraceElement(structure, unit) {
     return {

package/lib/commonjs/mol-repr/structure/visual/util/polymer.js

@@ -6,7 +6,14 @@
  * @author David Sehnal <david.sehnal@gmail.com>
  */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.eachPolymerGapElement = exports.getPolymerGapElementLoci = exports.eachPolymerElement = exports.eachAtomicUnitTracedElement = exports.getPolymerElementLoci = exports.PolymerGapLocationIterator = exports.PolymerLocationIterator = exports.getGapRanges = exports.getPolymerRanges = exports.OverhangFactor = exports.NucleicShift = exports.StandardShift = exports.HelixTension = exports.StandardTension = void 0;
+exports.PolymerGapLocationIterator = exports.PolymerLocationIterator = exports.OverhangFactor = exports.NucleicShift = exports.StandardShift = exports.HelixTension = exports.StandardTension = void 0;
+exports.getPolymerRanges = getPolymerRanges;
+exports.getGapRanges = getGapRanges;
+exports.getPolymerElementLoci = getPolymerElementLoci;
+exports.eachAtomicUnitTracedElement = eachAtomicUnitTracedElement;
+exports.eachPolymerElement = eachPolymerElement;
+exports.getPolymerGapElementLoci = getPolymerGapElementLoci;
+exports.eachPolymerGapElement = eachPolymerGapElement;
 const tslib_1 = require("tslib");
 const structure_1 = require("../../../../mol-model/structure");
 const int_1 = require("../../../../mol-data/int");
@@ -29,7 +36,6 @@ function getPolymerRanges(unit) {
         case 2 /* Unit.Kind.Gaussians */: return unit.model.coarseHierarchy.gaussians.polymerRanges;
     }
 }
-exports.getPolymerRanges = getPolymerRanges;
 function getGapRanges(unit) {
     switch (unit.kind) {
         case 0 /* Unit.Kind.Atomic */: return unit.model.atomicRanges.gapRanges;
@@ -37,7 +43,6 @@ function getGapRanges(unit) {
         case 2 /* Unit.Kind.Gaussians */: return unit.model.coarseHierarchy.gaussians.gapRanges;
     }
 }
-exports.getGapRanges = getGapRanges;
 var PolymerLocationIterator;
 (function (PolymerLocationIterator) {
     function fromGroup(structureGroup, options) {
@@ -99,7 +104,6 @@ function getPolymerElementLoci(pickingId, structureGroup, id) {
     }
     return loci_1.EmptyLoci;
 }
-exports.getPolymerElementLoci = getPolymerElementLoci;
 function tryApplyResidueInterval(offset, elements, traceElementIndex, apply, r1, r2) {
     let start = -1, startIdx = -1;
     for (let rI = r1; rI <= r2; rI++) {
@@ -164,7 +168,6 @@ function eachAtomicUnitTracedElement(offset, groupSize, elementsSelector, apply,
     }
     return changed;
 }
-exports.eachAtomicUnitTracedElement = eachAtomicUnitTracedElement;
 function selectPolymerElements(u) { return u.polymerElements; }
 /** Mark a polymer element (e.g. part of a cartoon trace) */
 function eachPolymerElement(loci, structureGroup, apply) {
@@ -203,7 +206,6 @@ function eachPolymerElement(loci, structureGroup, apply) {
     }
     return changed;
 }
-exports.eachPolymerElement = eachPolymerElement;
 /** Return a Loci for both directions of the polymer gap element. */
 function getPolymerGapElementLoci(pickingId, structureGroup, id) {
     const { objectId, instanceId, groupId } = pickingId;
@@ -221,7 +223,6 @@ function getPolymerGapElementLoci(pickingId, structureGroup, id) {
     }
     return loci_1.EmptyLoci;
 }
-exports.getPolymerGapElementLoci = getPolymerGapElementLoci;
 function eachPolymerGapElement(loci, structureGroup, apply) {
     let changed = false;
     if (structure_1.Bond.isLoci(loci)) {
@@ -263,4 +264,3 @@ function eachPolymerGapElement(loci, structureGroup, apply) {
     }
     return changed;
 }
-exports.eachPolymerGapElement = eachPolymerGapElement;

package/lib/commonjs/mol-repr/util.js

@@ -5,7 +5,9 @@
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
  */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.getQualityProps = exports.getStructureQuality = exports.DefaultQualityThresholds = exports.VisualUpdateState = void 0;
+exports.DefaultQualityThresholds = exports.VisualUpdateState = void 0;
+exports.getStructureQuality = getStructureQuality;
+exports.getQualityProps = getQualityProps;
 const mol_util_1 = require("../mol-util");
 const structure_1 = require("../mol-model/structure");
 const geometry_1 = require("../mol-math/geometry");
@@ -68,7 +70,6 @@ function getStructureQuality(structure, tresholds = {}) {
         return 'higher';
     }
 }
-exports.getStructureQuality = getStructureQuality;
 /**
  * Uses cell volume to avoid costly boundary calculation if
  * - single model
@@ -179,4 +180,3 @@ function getQualityProps(props, data) {
         doubleSided
     };
 }
-exports.getQualityProps = getQualityProps;

package/lib/commonjs/mol-repr/volume/direct-volume.d.ts

@@ -27,26 +27,27 @@ export declare const DirectVolumeParams: {
         isEssential: boolean;
         type: "select";
         options: readonly (readonly ["auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest", string] | readonly ["auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest", string, string | undefined])[];
-        cycle?: boolean | undefined;
-        isOptional?: boolean | undefined;
+        cycle?: boolean;
+        isOptional?: boolean;
         defaultValue: "auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest";
-        label?: string | undefined;
-        description?: string | undefined;
-        legend?: import("../../mol-util/legend").Legend | undefined;
+        label?: string;
+        description?: string;
+        legend?: import("../../mol-util/legend").Legend;
         fieldLabels?: {
             [name: string]: string;
-        } | undefined;
-        isHidden?: boolean | undefined;
-        shortLabel?: boolean | undefined;
-        twoColumns?: boolean | undefined;
-        category?: string | undefined;
-        hideIf?: ((currentGroup: any) => boolean) | undefined;
-        help?: ((value: any) => {
-            description?: string | undefined;
-            legend?: import("../../mol-util/legend").Legend | undefined;
-        }) | undefined;
+        };
+        isHidden?: boolean;
+        shortLabel?: boolean;
+        twoColumns?: boolean;
+        category?: string;
+        hideIf?: (currentGroup: any) => boolean;
+        help?: (value: any) => {
+            description?: string;
+            legend?: import("../../mol-util/legend").Legend;
+        };
     };
     ignoreLight: PD.BooleanParam;
+    celShaded: PD.BooleanParam;
     xrayShaded: PD.Select<boolean | "inverted">;
     controlPoints: PD.LineGraph;
     stepsPerCell: PD.Numeric;
@@ -79,26 +80,27 @@ export declare function getDirectVolumeParams(ctx: ThemeRegistryContext, volume:
         isEssential: boolean;
         type: "select";
         options: readonly (readonly ["auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest", string] | readonly ["auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest", string, string | undefined])[];
-        cycle?: boolean | undefined;
-        isOptional?: boolean | undefined;
+        cycle?: boolean;
+        isOptional?: boolean;
         defaultValue: "auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest";
-        label?: string | undefined;
-        description?: string | undefined;
-        legend?: import("../../mol-util/legend").Legend | undefined;
+        label?: string;
+        description?: string;
+        legend?: import("../../mol-util/legend").Legend;
         fieldLabels?: {
             [name: string]: string;
-        } | undefined;
-        isHidden?: boolean | undefined;
-        shortLabel?: boolean | undefined;
-        twoColumns?: boolean | undefined;
-        category?: string | undefined;
-        hideIf?: ((currentGroup: any) => boolean) | undefined;
-        help?: ((value: any) => {
-            description?: string | undefined;
-            legend?: import("../../mol-util/legend").Legend | undefined;
-        }) | undefined;
+        };
+        isHidden?: boolean;
+        shortLabel?: boolean;
+        twoColumns?: boolean;
+        category?: string;
+        hideIf?: (currentGroup: any) => boolean;
+        help?: (value: any) => {
+            description?: string;
+            legend?: import("../../mol-util/legend").Legend;
+        };
     };
     ignoreLight: PD.BooleanParam;
+    celShaded: PD.BooleanParam;
     xrayShaded: PD.Select<boolean | "inverted">;
     controlPoints: PD.LineGraph;
     stepsPerCell: PD.Numeric;
@@ -133,26 +135,27 @@ export declare const DirectVolumeRepresentationProvider: VolumeRepresentationPro
         isEssential: boolean;
         type: "select";
         options: readonly (readonly ["auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest", string] | readonly ["auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest", string, string | undefined])[];
-        cycle?: boolean | undefined;
-        isOptional?: boolean | undefined;
+        cycle?: boolean;
+        isOptional?: boolean;
         defaultValue: "auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest";
-        label?: string | undefined;
-        description?: string | undefined;
-        legend?: import("../../mol-util/legend").Legend | undefined;
+        label?: string;
+        description?: string;
+        legend?: import("../../mol-util/legend").Legend;
         fieldLabels?: {
             [name: string]: string;
-        } | undefined;
-        isHidden?: boolean | undefined;
-        shortLabel?: boolean | undefined;
-        twoColumns?: boolean | undefined;
-        category?: string | undefined;
-        hideIf?: ((currentGroup: any) => boolean) | undefined;
-        help?: ((value: any) => {
-            description?: string | undefined;
-            legend?: import("../../mol-util/legend").Legend | undefined;
-        }) | undefined;
+        };
+        isHidden?: boolean;
+        shortLabel?: boolean;
+        twoColumns?: boolean;
+        category?: string;
+        hideIf?: (currentGroup: any) => boolean;
+        help?: (value: any) => {
+            description?: string;
+            legend?: import("../../mol-util/legend").Legend;
+        };
     };
     ignoreLight: PD.BooleanParam;
+    celShaded: PD.BooleanParam;
     xrayShaded: PD.Select<boolean | "inverted">;
     controlPoints: PD.LineGraph;
     stepsPerCell: PD.Numeric;

package/lib/commonjs/mol-repr/volume/direct-volume.js

@@ -5,7 +5,15 @@
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
  */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.DirectVolumeRepresentationProvider = exports.DirectVolumeRepresentation = exports.DirectVolumeVisual = exports.getDirectVolumeParams = exports.DirectVolumeParams = exports.eachDirectVolume = exports.getDirectVolumeLoci = exports.createDirectVolume = exports.createDirectVolume3d = exports.createDirectVolume2d = void 0;
+exports.DirectVolumeRepresentationProvider = exports.DirectVolumeParams = void 0;
+exports.createDirectVolume2d = createDirectVolume2d;
+exports.createDirectVolume3d = createDirectVolume3d;
+exports.createDirectVolume = createDirectVolume;
+exports.getDirectVolumeLoci = getDirectVolumeLoci;
+exports.eachDirectVolume = eachDirectVolume;
+exports.getDirectVolumeParams = getDirectVolumeParams;
+exports.DirectVolumeVisual = DirectVolumeVisual;
+exports.DirectVolumeRepresentation = DirectVolumeRepresentation;
 const param_definition_1 = require("../../mol-util/param-definition");
 const linear_algebra_1 = require("../../mol-math/linear-algebra");
 const geometry_1 = require("../../mol-math/geometry");
@@ -40,7 +48,6 @@ function createDirectVolume2d(ctx, webgl, volume, directVolume) {
     const axisOrder = volume.grid.cells.space.axisOrderSlowToFast;
     return direct_volume_1.DirectVolume.create(bbox, gridDimension, transform, unitToCartn, cellDim, texture, volume.grid.stats, false, axisOrder, directVolume);
 }
-exports.createDirectVolume2d = createDirectVolume2d;
 // 3d volume texture
 function getUnitToCartn(grid) {
     if (grid.transform.kind === 'matrix') {
@@ -70,7 +77,6 @@ function createDirectVolume3d(ctx, webgl, volume, directVolume) {
     const axisOrder = volume.grid.cells.space.axisOrderSlowToFast;
     return direct_volume_1.DirectVolume.create(bbox, gridDimension, transform, unitToCartn, cellDim, texture, volume.grid.stats, false, axisOrder, directVolume);
 }
-exports.createDirectVolume3d = createDirectVolume3d;
 //
 async function createDirectVolume(ctx, volume, key, theme, props, directVolume) {
     const { runtime, webgl } = ctx;
@@ -80,7 +86,6 @@ async function createDirectVolume(ctx, volume, key, theme, props, directVolume)
         createDirectVolume3d(runtime, webgl, volume, directVolume) :
         createDirectVolume2d(runtime, webgl, volume, directVolume);
 }
-exports.createDirectVolume = createDirectVolume;
 function getLoci(volume, props) {
     return volume_1.Volume.Loci(volume);
 }
@@ -91,11 +96,9 @@ function getDirectVolumeLoci(pickingId, volume, key, props, id) {
     }
     return loci_1.EmptyLoci;
 }
-exports.getDirectVolumeLoci = getDirectVolumeLoci;
 function eachDirectVolume(loci, volume, key, props, apply) {
     return (0, util_1.eachVolumeLoci)(loci, volume, undefined, apply);
 }
-exports.eachDirectVolume = eachDirectVolume;
 //
 exports.DirectVolumeParams = {
     ...direct_volume_1.DirectVolume.Params,
@@ -106,7 +109,6 @@ function getDirectVolumeParams(ctx, volume) {
     params.controlPoints.getVolume = () => volume;
     return params;
 }
-exports.getDirectVolumeParams = getDirectVolumeParams;
 function DirectVolumeVisual(materialId) {
     return (0, representation_1.VolumeVisual)({
         defaultProps: param_definition_1.ParamDefinition.getDefaultValues(exports.DirectVolumeParams),
@@ -122,11 +124,9 @@ function DirectVolumeVisual(materialId) {
         }
     }, materialId);
 }
-exports.DirectVolumeVisual = DirectVolumeVisual;
 function DirectVolumeRepresentation(ctx, getParams) {
     return (0, representation_1.VolumeRepresentation)('Direct Volume', ctx, getParams, DirectVolumeVisual, getLoci);
 }
-exports.DirectVolumeRepresentation = DirectVolumeRepresentation;
 exports.DirectVolumeRepresentationProvider = (0, representation_1.VolumeRepresentationProvider)({
     name: 'direct-volume',
     label: 'Direct Volume',