molstar 4.3.0 → 4.4.1

package/lib/commonjs/mol-model-props/computed/helix-orientation/helix-orientation.js

@@ -5,7 +5,7 @@
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
  */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.calcHelixOrientation = void 0;
+exports.calcHelixOrientation = calcHelixOrientation;
 const segmentation_1 = require("../../../mol-data/int/segmentation");
 const sorted_ranges_1 = require("../../../mol-data/int/sorted-ranges");
 const int_1 = require("../../../mol-data/int");
@@ -107,4 +107,3 @@ function calcHelixOrientation(model) {
         centers
     };
 }
-exports.calcHelixOrientation = calcHelixOrientation;

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

@@ -5,7 +5,10 @@
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
  */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.featureGroupLabel = exports.FeatureGroup = exports.featureTypeLabel = exports.FeatureTypes = exports.interactionTypeLabel = exports.InteractionType = exports.InteractionFlag = exports.InteractionsInterContacts = exports.InteractionsIntraContacts = void 0;
+exports.FeatureGroup = exports.FeatureTypes = exports.InteractionType = exports.InteractionFlag = exports.InteractionsInterContacts = exports.InteractionsIntraContacts = void 0;
+exports.interactionTypeLabel = interactionTypeLabel;
+exports.featureTypeLabel = featureTypeLabel;
+exports.featureGroupLabel = featureGroupLabel;
 const inter_unit_graph_1 = require("../../../mol-math/graph/inter-unit-graph");
 var InteractionsIntraContacts;
 (function (InteractionsIntraContacts) {
@@ -124,7 +127,6 @@ function interactionTypeLabel(type) {
             return 'Unknown Interaction';
     }
 }
-exports.interactionTypeLabel = interactionTypeLabel;
 // to use with isolatedModules
 var FeatureTypes;
 (function (FeatureTypes) {
@@ -175,7 +177,6 @@ function featureTypeLabel(type) {
             return 'Ionic Type Metal';
     }
 }
-exports.featureTypeLabel = featureTypeLabel;
 var FeatureGroup;
 (function (FeatureGroup) {
     FeatureGroup[FeatureGroup["None"] = 0] = "None";
@@ -216,4 +217,3 @@ function featureGroupLabel(group) {
             return 'Carboxylate';
     }
 }
-exports.featureGroupLabel = featureGroupLabel;

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

@@ -5,7 +5,9 @@
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
  */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.addStructureContacts = exports.addUnitContacts = exports.ContactsParams = void 0;
+exports.ContactsParams = void 0;
+exports.addUnitContacts = addUnitContacts;
+exports.addStructureContacts = addStructureContacts;
 const int_1 = require("../../../mol-data/int");
 const linear_algebra_1 = require("../../../mol-math/linear-algebra");
 const structure_1 = require("../../../mol-model/structure");
@@ -100,7 +102,6 @@ function addUnitContacts(structure, unit, features, builder, testers, props) {
         _addUnitContacts(structure, unit, features, builder, tester, props);
     }
 }
-exports.addUnitContacts = addUnitContacts;
 function _addUnitContacts(structure, unit, features, builder, tester, props) {
     const { x, y, z } = features;
     const { lookup3d, indices: subsetIndices } = features.subset(tester.requiredFeatures);
@@ -175,4 +176,3 @@ function addStructureContacts(structure, unitA, featuresA, unitB, featuresB, bui
     }
     builder.finishUnitPair();
 }
-exports.addStructureContacts = addStructureContacts;

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

@@ -5,7 +5,8 @@
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
  */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.computeInteractions = exports.InteractionsParams = exports.ContactProviderParams = exports.Interactions = void 0;
+exports.InteractionsParams = exports.ContactProviderParams = exports.Interactions = void 0;
+exports.computeInteractions = computeInteractions;
 const param_definition_1 = require("../../../mol-util/param-definition");
 const structure_1 = require("../../../mol-model/structure");
 const features_1 = require("./features");
@@ -172,7 +173,6 @@ async function computeInteractions(ctx, structure, props) {
     (0, refine_1.refineInteractions)(structure, interactions);
     return interactions;
 }
-exports.computeInteractions = computeInteractions;
 function findUnitFeatures(structure, unit, featureProviders) {
     const count = unit.elements.length;
     const featuresBuilder = features_1.FeaturesBuilder.create(count, count / 2);

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

@@ -7,7 +7,7 @@
  * based in part on NGL (https://github.com/arose/ngl)
  */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.refineInteractions = void 0;
+exports.refineInteractions = refineInteractions;
 const common_1 = require("./common");
 const structure_1 = require("../../../mol-model/structure");
 const features_1 = require("./features");
@@ -59,7 +59,6 @@ function refineInteractions(structure, interactions) {
         }
     }
 }
-exports.refineInteractions = refineInteractions;
 /**
  * For atoms interacting with several atoms in the same residue
  * only the one with the closest distance is kept.

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

@@ -28,6 +28,7 @@ export declare const InteractionsInterUnitParams: {
     flipSided: PD.BooleanParam;
     flatShaded: PD.BooleanParam;
     ignoreLight: PD.BooleanParam;
+    celShaded: PD.BooleanParam;
     xrayShaded: PD.Select<boolean | "inverted">;
     transparentBackfaces: PD.Select<"on" | "off" | "opaque">;
     bumpFrequency: PD.Numeric;

package/lib/commonjs/mol-model-props/computed/representations/interactions-inter-unit-cylinder.js

@@ -5,7 +5,8 @@
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
  */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.InteractionsInterUnitVisual = exports.InteractionsInterUnitParams = void 0;
+exports.InteractionsInterUnitParams = void 0;
+exports.InteractionsInterUnitVisual = InteractionsInterUnitVisual;
 const param_definition_1 = require("../../../mol-util/param-definition");
 const structure_1 = require("../../../mol-model/structure");
 const mesh_1 = require("../../../mol-geo/geometry/mesh/mesh");
@@ -195,7 +196,6 @@ function InteractionsInterUnitVisual(materialId) {
         }
     }, materialId);
 }
-exports.InteractionsInterUnitVisual = InteractionsInterUnitVisual;
 function getInteractionLoci(pickingId, structure, id) {
     const { objectId, groupId } = pickingId;
     if (id === objectId) {

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

@@ -28,6 +28,7 @@ export declare const InteractionsIntraUnitParams: {
     flipSided: PD.BooleanParam;
     flatShaded: PD.BooleanParam;
     ignoreLight: PD.BooleanParam;
+    celShaded: PD.BooleanParam;
     xrayShaded: PD.Select<boolean | "inverted">;
     transparentBackfaces: PD.Select<"on" | "off" | "opaque">;
     bumpFrequency: PD.Numeric;

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

@@ -5,7 +5,8 @@
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
  */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.InteractionsIntraUnitVisual = exports.InteractionsIntraUnitParams = void 0;
+exports.InteractionsIntraUnitParams = void 0;
+exports.InteractionsIntraUnitVisual = InteractionsIntraUnitVisual;
 const structure_1 = require("../../../mol-model/structure");
 const linear_algebra_1 = require("../../../mol-math/linear-algebra");
 const loci_1 = require("../../../mol-model/loci");
@@ -168,7 +169,6 @@ function InteractionsIntraUnitVisual(materialId) {
         }
     }, materialId);
 }
-exports.InteractionsIntraUnitVisual = InteractionsIntraUnitVisual;
 function getInteractionLoci(pickingId, structureGroup, id) {
     const { objectId, instanceId, groupId } = pickingId;
     if (id === objectId) {

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

@@ -32,6 +32,7 @@ export declare const InteractionsParams: {
     flipSided: PD.BooleanParam;
     flatShaded: PD.BooleanParam;
     ignoreLight: PD.BooleanParam;
+    celShaded: PD.BooleanParam;
     xrayShaded: PD.Select<boolean | "inverted">;
     transparentBackfaces: PD.Select<"on" | "off" | "opaque">;
     bumpFrequency: PD.Numeric;
@@ -84,6 +85,7 @@ export declare function getInteractionParams(ctx: ThemeRegistryContext, structur
     flipSided: PD.BooleanParam;
     flatShaded: PD.BooleanParam;
     ignoreLight: PD.BooleanParam;
+    celShaded: PD.BooleanParam;
     xrayShaded: PD.Select<boolean | "inverted">;
     transparentBackfaces: PD.Select<"on" | "off" | "opaque">;
     bumpFrequency: PD.Numeric;
@@ -137,6 +139,7 @@ export declare const InteractionsRepresentationProvider: StructureRepresentation
     flipSided: PD.BooleanParam;
     flatShaded: PD.BooleanParam;
     ignoreLight: PD.BooleanParam;
+    celShaded: PD.BooleanParam;
     xrayShaded: PD.Select<boolean | "inverted">;
     transparentBackfaces: PD.Select<"on" | "off" | "opaque">;
     bumpFrequency: PD.Numeric;

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

@@ -5,7 +5,9 @@
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
  */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.InteractionsRepresentationProvider = exports.InteractionRepresentation = exports.getInteractionParams = exports.InteractionsParams = void 0;
+exports.InteractionsRepresentationProvider = exports.InteractionsParams = void 0;
+exports.getInteractionParams = getInteractionParams;
+exports.InteractionRepresentation = InteractionRepresentation;
 const param_definition_1 = require("../../../mol-util/param-definition");
 const representation_1 = require("../../../mol-repr/representation");
 const representation_2 = require("../../../mol-repr/structure/representation");
@@ -27,11 +29,9 @@ exports.InteractionsParams = {
 function getInteractionParams(ctx, structure) {
     return param_definition_1.ParamDefinition.clone(exports.InteractionsParams);
 }
-exports.getInteractionParams = getInteractionParams;
 function InteractionRepresentation(ctx, getParams) {
     return representation_1.Representation.createMulti('Interactions', ctx, getParams, representation_2.StructureRepresentationStateBuilder, InteractionsVisuals);
 }
-exports.InteractionRepresentation = InteractionRepresentation;
 exports.InteractionsRepresentationProvider = (0, representation_2.StructureRepresentationProvider)({
     name: 'interactions',
     label: 'Non-covalent Interactions',

package/lib/commonjs/mol-model-props/computed/secondary-structure/dssp/backbone-hbonds.js

@@ -6,7 +6,7 @@
  * @author Sebastian Bittrich <sebastian.bittrich@rcsb.org>
  */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.calcUnitBackboneHbonds = void 0;
+exports.calcUnitBackboneHbonds = calcUnitBackboneHbonds;
 const graph_1 = require("../../../../mol-math/graph");
 const linear_algebra_1 = require("../../../../mol-math/linear-algebra");
 /** max distance between two C-alpha atoms to check for hbond */
@@ -112,7 +112,6 @@ function calcUnitBackboneHbonds(unit, proteinInfo, lookup3d) {
     }
     return buildHbondGraph(residueCount, oAtomResidues, nAtomResidues, energies);
 }
-exports.calcUnitBackboneHbonds = calcUnitBackboneHbonds;
 function buildHbondGraph(residueCount, oAtomResidues, nAtomResidues, energies) {
     const builder = new graph_1.IntAdjacencyGraph.DirectedEdgeBuilder(residueCount, oAtomResidues, nAtomResidues);
     const _energies = new Float32Array(builder.slotCount);

package/lib/commonjs/mol-model-props/computed/secondary-structure/dssp/bends.js

@@ -6,7 +6,7 @@
  * @author Sebastian Bittrich <sebastian.bittrich@rcsb.org>
  */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.assignBends = void 0;
+exports.assignBends = assignBends;
 const linear_algebra_1 = require("../../../../mol-math/linear-algebra");
 const misc_1 = require("../../../../mol-math/misc");
 /**
@@ -56,4 +56,3 @@ function assignBends(ctx) {
         }
     }
 }
-exports.assignBends = assignBends;

package/lib/commonjs/mol-model-props/computed/secondary-structure/dssp/bridges.js

@@ -6,7 +6,7 @@
  * @author Sebastian Bittrich <sebastian.bittrich@rcsb.org>
  */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.assignBridges = void 0;
+exports.assignBridges = assignBridges;
 const common_1 = require("./common");
 /**
  * Two nonoverlapping stretches of three residues each, i - 1, i, i + 1 and j - 1, j, j + 1,
@@ -70,4 +70,3 @@ function assignBridges(ctx) {
     }
     bridges.sort((a, b) => a.partner1 > b.partner1 ? 1 : a.partner1 < b.partner1 ? -1 : 0);
 }
-exports.assignBridges = assignBridges;

package/lib/commonjs/mol-model-props/computed/secondary-structure/dssp/dihedral-angles.js

@@ -6,7 +6,7 @@
  * @author Sebastian Bittrich <sebastian.bittrich@rcsb.org>
  */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.calculateUnitDihedralAngles = void 0;
+exports.calculateUnitDihedralAngles = calculateUnitDihedralAngles;
 const linear_algebra_1 = require("../../../../mol-math/linear-algebra");
 const misc_1 = require("../../../../mol-math/misc");
 function calculateUnitDihedralAngles(unit, proteinInfo) {
@@ -47,4 +47,3 @@ function calculateUnitDihedralAngles(unit, proteinInfo) {
     }
     return { phi, psi };
 }
-exports.calculateUnitDihedralAngles = calculateUnitDihedralAngles;

package/lib/commonjs/mol-model-props/computed/secondary-structure/dssp/helices.js

@@ -6,7 +6,7 @@
  * @author Sebastian Bittrich <sebastian.bittrich@rcsb.org>
  */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.assignHelices = void 0;
+exports.assignHelices = assignHelices;
 const common_1 = require("./common");
 /**
  * A minimal helix is defined by two consecutive n-turns.
@@ -60,4 +60,3 @@ function assignHelices(ctx) {
         }
     }
 }
-exports.assignHelices = assignHelices;

package/lib/commonjs/mol-model-props/computed/secondary-structure/dssp/ladders.js

@@ -6,7 +6,7 @@
  * @author Sebastian Bittrich <sebastian.bittrich@rcsb.org>
  */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.assignLadders = void 0;
+exports.assignLadders = assignLadders;
 function shouldExtendLadder(ladder, bridge) {
     // in order to extend ladders, same type must be present
     if (bridge.type !== ladder.type)
@@ -95,4 +95,3 @@ function assignLadders(ctx) {
         }
     }
 }
-exports.assignLadders = assignLadders;

package/lib/commonjs/mol-model-props/computed/secondary-structure/dssp/protein-info.js

@@ -6,7 +6,7 @@
  * @author Sebastian Bittrich <sebastian.bittrich@rcsb.org>
  */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.getUnitProteinInfo = void 0;
+exports.getUnitProteinInfo = getUnitProteinInfo;
 const int_1 = require("../../../../mol-data/int");
 function getUnitProteinInfo(unit) {
     const { index } = unit.model.atomicHierarchy;
@@ -33,4 +33,3 @@ function getUnitProteinInfo(unit) {
         nIndices: n,
     };
 }
-exports.getUnitProteinInfo = getUnitProteinInfo;

package/lib/commonjs/mol-model-props/computed/secondary-structure/dssp/sheets.js

@@ -6,7 +6,7 @@
  * @author Sebastian Bittrich <sebastian.bittrich@rcsb.org>
  */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.assignSheets = void 0;
+exports.assignSheets = assignSheets;
 const common_1 = require("./common");
 function isHelixType(f) {
     return common_1.DSSPType.is(f, 8 /* DSSPType.Flag.G */) || common_1.DSSPType.is(f, 1 /* DSSPType.Flag.H */) || common_1.DSSPType.is(f, 16 /* DSSPType.Flag.I */);
@@ -54,4 +54,3 @@ function assignSheets(ctx) {
         }
     }
 }
-exports.assignSheets = assignSheets;

package/lib/commonjs/mol-model-props/computed/secondary-structure/dssp/trace-lookup.js

@@ -5,7 +5,7 @@
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
  */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.calcUnitProteinTraceLookup3D = void 0;
+exports.calcUnitProteinTraceLookup3D = calcUnitProteinTraceLookup3D;
 const geometry_1 = require("../../../../mol-math/geometry");
 const int_1 = require("../../../../mol-data/int");
 const boundary_1 = require("../../../../mol-math/geometry/boundary");
@@ -19,4 +19,3 @@ function calcUnitProteinTraceLookup3D(unit, unitProteinResidues) {
     const position = { x, y, z, indices: int_1.SortedArray.ofSortedArray(indices) };
     return (0, geometry_1.GridLookup3D)(position, (0, boundary_1.getBoundary)(position));
 }
-exports.calcUnitProteinTraceLookup3D = calcUnitProteinTraceLookup3D;

package/lib/commonjs/mol-model-props/computed/secondary-structure/dssp/turns.js

@@ -6,7 +6,7 @@
  * @author Sebastian Bittrich <sebastian.bittrich@rcsb.org>
  */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.assignTurns = void 0;
+exports.assignTurns = assignTurns;
 /**
  * The basic turn pattern is a single H bond of type (i, i + n).
  * We assign an n-turn at residue i if there is an H bond from CO(i) to NH(i + n),
@@ -36,4 +36,3 @@ function assignTurns(ctx) {
         }
     }
 }
-exports.assignTurns = assignTurns;

package/lib/commonjs/mol-model-props/computed/secondary-structure/dssp.js

@@ -6,7 +6,8 @@
  * @author Sebastian Bittrich <sebastian.bittrich@rcsb.org>
  */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.computeUnitDSSP = exports.DSSPComputationParams = void 0;
+exports.DSSPComputationParams = void 0;
+exports.computeUnitDSSP = computeUnitDSSP;
 const secondary_structure_1 = require("../../../mol-model/structure/model/properties/secondary-structure");
 const types_1 = require("../../../mol-model/structure/model/types");
 const param_definition_1 = require("../../../mol-util/param-definition");
@@ -82,7 +83,6 @@ async function computeUnitDSSP(unit, params) {
     }
     return (0, secondary_structure_1.SecondaryStructure)(type, keys, elements, getIndex);
 }
-exports.computeUnitDSSP = computeUnitDSSP;
 function createElement(kind, flag, getResidueFlag) {
     // TODO would be nice to add more detailed information
     if (kind === 'helix') {

package/lib/commonjs/mol-model-props/computed/themes/accessible-surface-area.js

@@ -6,7 +6,9 @@
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
  */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.AccessibleSurfaceAreaColorThemeProvider = exports.AccessibleSurfaceAreaColorTheme = exports.getAccessibleSurfaceAreaColorThemeParams = exports.AccessibleSurfaceAreaColorThemeParams = void 0;
+exports.AccessibleSurfaceAreaColorThemeProvider = exports.AccessibleSurfaceAreaColorThemeParams = void 0;
+exports.getAccessibleSurfaceAreaColorThemeParams = getAccessibleSurfaceAreaColorThemeParams;
+exports.AccessibleSurfaceAreaColorTheme = AccessibleSurfaceAreaColorTheme;
 const param_definition_1 = require("../../../mol-util/param-definition");
 const color_1 = require("../../../mol-util/color");
 const color_2 = require("../../../mol-theme/color");
@@ -22,7 +24,6 @@ exports.AccessibleSurfaceAreaColorThemeParams = {
 function getAccessibleSurfaceAreaColorThemeParams(ctx) {
     return exports.AccessibleSurfaceAreaColorThemeParams; // TODO return copy
 }
-exports.getAccessibleSurfaceAreaColorThemeParams = getAccessibleSurfaceAreaColorThemeParams;
 function AccessibleSurfaceAreaColorTheme(ctx, props) {
     let color;
     const scale = color_1.ColorScale.create({
@@ -66,7 +67,6 @@ function AccessibleSurfaceAreaColorTheme(ctx, props) {
         legend: scale ? scale.legend : undefined
     };
 }
-exports.AccessibleSurfaceAreaColorTheme = AccessibleSurfaceAreaColorTheme;
 exports.AccessibleSurfaceAreaColorThemeProvider = {
     name: 'accessible-surface-area',
     label: 'Accessible Surface Area',

package/lib/commonjs/mol-model-props/computed/themes/interaction-type.js

@@ -5,7 +5,9 @@
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
  */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.InteractionTypeColorThemeProvider = exports.InteractionTypeColorTheme = exports.getInteractionTypeColorThemeParams = exports.InteractionTypeColorThemeParams = void 0;
+exports.InteractionTypeColorThemeProvider = exports.InteractionTypeColorThemeParams = void 0;
+exports.getInteractionTypeColorThemeParams = getInteractionTypeColorThemeParams;
+exports.InteractionTypeColorTheme = InteractionTypeColorTheme;
 const color_1 = require("../../../mol-util/color");
 const param_definition_1 = require("../../../mol-util/param-definition");
 const interactions_1 = require("../interactions");
@@ -62,7 +64,6 @@ exports.InteractionTypeColorThemeParams = {};
 function getInteractionTypeColorThemeParams(ctx) {
     return exports.InteractionTypeColorThemeParams; // TODO return copy
 }
-exports.getInteractionTypeColorThemeParams = getInteractionTypeColorThemeParams;
 function InteractionTypeColorTheme(ctx, props) {
     let color;
     const interactions = ctx.structure ? interactions_1.InteractionsProvider.get(ctx.structure) : undefined;
@@ -98,7 +99,6 @@ function InteractionTypeColorTheme(ctx, props) {
         legend: (0, legend_1.TableLegend)(InteractionTypeColorTable)
     };
 }
-exports.InteractionTypeColorTheme = InteractionTypeColorTheme;
 exports.InteractionTypeColorThemeProvider = {
     name: 'interaction-type',
     label: 'Interaction Type',

package/lib/commonjs/mol-model-props/integrative/cross-link-restraint/color.js

@@ -5,7 +5,9 @@
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
  */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.CrossLinkColorThemeProvider = exports.CrossLinkColorTheme = exports.getCrossLinkColorThemeParams = exports.CrossLinkColorThemeParams = void 0;
+exports.CrossLinkColorThemeProvider = exports.CrossLinkColorThemeParams = void 0;
+exports.getCrossLinkColorThemeParams = getCrossLinkColorThemeParams;
+exports.CrossLinkColorTheme = CrossLinkColorTheme;
 const color_1 = require("../../../mol-util/color");
 const param_definition_1 = require("../../../mol-util/param-definition");
 const color_2 = require("../../../mol-theme/color");
@@ -19,7 +21,6 @@ exports.CrossLinkColorThemeParams = {
 function getCrossLinkColorThemeParams(ctx) {
     return exports.CrossLinkColorThemeParams; // TODO return copy
 }
-exports.getCrossLinkColorThemeParams = getCrossLinkColorThemeParams;
 function CrossLinkColorTheme(ctx, props) {
     let color;
     let scale = undefined;
@@ -52,7 +53,6 @@ function CrossLinkColorTheme(ctx, props) {
         legend: scale ? scale.legend : undefined
     };
 }
-exports.CrossLinkColorTheme = CrossLinkColorTheme;
 exports.CrossLinkColorThemeProvider = {
     name: 'cross-link',
     label: 'Cross Link',

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

@@ -30,6 +30,7 @@ export declare const CrossLinkRestraintCylinderParams: {
     flipSided: PD.BooleanParam;
     flatShaded: PD.BooleanParam;
     ignoreLight: PD.BooleanParam;
+    celShaded: PD.BooleanParam;
     xrayShaded: PD.Select<boolean | "inverted">;
     transparentBackfaces: PD.Select<"on" | "off" | "opaque">;
     bumpFrequency: PD.Numeric;
@@ -79,6 +80,7 @@ export declare const CrossLinkRestraintParams: {
     flipSided: PD.BooleanParam;
     flatShaded: PD.BooleanParam;
     ignoreLight: PD.BooleanParam;
+    celShaded: PD.BooleanParam;
     xrayShaded: PD.Select<boolean | "inverted">;
     transparentBackfaces: PD.Select<"on" | "off" | "opaque">;
     bumpFrequency: PD.Numeric;
@@ -127,6 +129,7 @@ export declare function getCrossLinkRestraintParams(ctx: ThemeRegistryContext, s
     flipSided: PD.BooleanParam;
     flatShaded: PD.BooleanParam;
     ignoreLight: PD.BooleanParam;
+    celShaded: PD.BooleanParam;
     xrayShaded: PD.Select<boolean | "inverted">;
     transparentBackfaces: PD.Select<"on" | "off" | "opaque">;
     bumpFrequency: PD.Numeric;
@@ -176,6 +179,7 @@ export declare const CrossLinkRestraintRepresentationProvider: StructureRepresen
     flipSided: PD.BooleanParam;
     flatShaded: PD.BooleanParam;
     ignoreLight: PD.BooleanParam;
+    celShaded: PD.BooleanParam;
     xrayShaded: PD.Select<boolean | "inverted">;
     transparentBackfaces: PD.Select<"on" | "off" | "opaque">;
     bumpFrequency: PD.Numeric;

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

@@ -5,7 +5,10 @@
  * @author Alexander Rose <alexander.rose@weirdbyte.de>
  */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.CrossLinkRestraintRepresentationProvider = exports.CrossLinkRestraintRepresentation = exports.getCrossLinkRestraintParams = exports.CrossLinkRestraintParams = exports.CrossLinkRestraintVisual = exports.CrossLinkRestraintCylinderParams = void 0;
+exports.CrossLinkRestraintRepresentationProvider = exports.CrossLinkRestraintParams = exports.CrossLinkRestraintCylinderParams = void 0;
+exports.CrossLinkRestraintVisual = CrossLinkRestraintVisual;
+exports.getCrossLinkRestraintParams = getCrossLinkRestraintParams;
+exports.CrossLinkRestraintRepresentation = CrossLinkRestraintRepresentation;
 const representation_1 = require("../../../mol-repr/representation");
 const mesh_1 = require("../../../mol-geo/geometry/mesh/mesh");
 const location_iterator_1 = require("../../../mol-geo/util/location-iterator");
@@ -68,7 +71,6 @@ function CrossLinkRestraintVisual(materialId) {
         }
     }, materialId);
 }
-exports.CrossLinkRestraintVisual = CrossLinkRestraintVisual;
 function createCrossLinkRestraintIterator(structure) {
     const crossLinkRestraints = property_1.CrossLinkRestraintProvider.get(structure).value;
     const { pairs } = crossLinkRestraints;
@@ -117,11 +119,9 @@ exports.CrossLinkRestraintParams = {
 function getCrossLinkRestraintParams(ctx, structure) {
     return param_definition_1.ParamDefinition.clone(exports.CrossLinkRestraintParams);
 }
-exports.getCrossLinkRestraintParams = getCrossLinkRestraintParams;
 function CrossLinkRestraintRepresentation(ctx, getParams) {
     return representation_1.Representation.createMulti('CrossLinkRestraint', ctx, getParams, representation_2.StructureRepresentationStateBuilder, CrossLinkRestraintVisuals);
 }
-exports.CrossLinkRestraintRepresentation = CrossLinkRestraintRepresentation;
 exports.CrossLinkRestraintRepresentationProvider = (0, representation_2.StructureRepresentationProvider)({
     name: property_1.CrossLinkRestraint.Tag.CrossLinkRestraint,
     label: 'Cross Link Restraint',

package/lib/commonjs/mol-model-props/sequence/themes/sifts-mapping.d.ts

@@ -18,7 +18,7 @@ export declare const SIFTSMappingColorThemeParams: {
         sampleCountFactor: number;
     }>, "generate"> | PD.NamedParams<PD.Normalize<{
         list: {
-            kind: "set" | "interpolate";
+            kind: "interpolate" | "set";
             colors: import("../../../mol-util/color/color").ColorListEntry[];
         };
     }>, "colors">>;
@@ -36,7 +36,7 @@ export declare function getSIFTSMappingColorThemeParams(ctx: ThemeDataContext):
         sampleCountFactor: number;
     }>, "generate"> | PD.NamedParams<PD.Normalize<{
         list: {
-            kind: "set" | "interpolate";
+            kind: "interpolate" | "set";
             colors: import("../../../mol-util/color/color").ColorListEntry[];
         };
     }>, "colors">>;

package/lib/commonjs/mol-model-props/sequence/themes/sifts-mapping.js

@@ -5,7 +5,9 @@
  * @author David Sehnal <david.sehnal@gmail.com>
  */
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.SIFTSMappingColorThemeProvider = exports.SIFTSMappingColorTheme = exports.getSIFTSMappingColorThemeParams = exports.SIFTSMappingColorThemeParams = void 0;
+exports.SIFTSMappingColorThemeProvider = exports.SIFTSMappingColorThemeParams = void 0;
+exports.getSIFTSMappingColorThemeParams = getSIFTSMappingColorThemeParams;
+exports.SIFTSMappingColorTheme = SIFTSMappingColorTheme;
 const structure_1 = require("../../../mol-model/structure");
 const color_1 = require("../../../mol-theme/color");
 const color_2 = require("../../../mol-util/color");
@@ -22,7 +24,6 @@ exports.SIFTSMappingColorThemeParams = {
 function getSIFTSMappingColorThemeParams(ctx) {
     return exports.SIFTSMappingColorThemeParams; // TODO return copy
 }
-exports.getSIFTSMappingColorThemeParams = getSIFTSMappingColorThemeParams;
 function SIFTSMappingColorTheme(ctx, props) {
     let color;
     if (ctx.structure) {
@@ -73,7 +74,6 @@ function SIFTSMappingColorTheme(ctx, props) {
         description: Description,
     };
 }
-exports.SIFTSMappingColorTheme = SIFTSMappingColorTheme;
 exports.SIFTSMappingColorThemeProvider = {
     name: 'sifts-mapping',
     label: 'SIFTS Mapping',

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

@@ -22,48 +22,48 @@ declare namespace PluginBehavior {
     const Root_base: {
         new (data: {}, props?: {
             label: string;
-            description?: string | undefined;
+            description?: string;
         } | undefined): {
             id: import("../../mol-util").UUID;
             type: PluginStateObject.TypeInfo;
             label: string;
-            description?: string | undefined;
+            description?: string;
             data: {};
         };
         type: PluginStateObject.TypeInfo;
-        is(obj?: import("../../mol-state").StateObject<any, import("../../mol-state").StateObject.Type<any>> | undefined): obj is import("../../mol-state").StateObject<{}, PluginStateObject.TypeInfo>;
+        is(obj?: import("../../mol-state").StateObject): obj is import("../../mol-state").StateObject<{}, PluginStateObject.TypeInfo>;
     };
     export class Root extends Root_base {
     }
     const Category_base: {
         new (data: {}, props?: {
             label: string;
-            description?: string | undefined;
+            description?: string;
         } | undefined): {
             id: import("../../mol-util").UUID;
             type: PluginStateObject.TypeInfo;
             label: string;
-            description?: string | undefined;
+            description?: string;
             data: {};
         };
         type: PluginStateObject.TypeInfo;
-        is(obj?: import("../../mol-state").StateObject<any, import("../../mol-state").StateObject.Type<any>> | undefined): obj is import("../../mol-state").StateObject<{}, PluginStateObject.TypeInfo>;
+        is(obj?: import("../../mol-state").StateObject): obj is import("../../mol-state").StateObject<{}, PluginStateObject.TypeInfo>;
     };
     export class Category extends Category_base {
     }
     const Behavior_base: {
         new (data: PluginBehavior<unknown>, props?: {
             label: string;
-            description?: string | undefined;
+            description?: string;
         } | undefined): {
             id: import("../../mol-util").UUID;
             type: PluginStateObject.TypeInfo;
             label: string;
-            description?: string | undefined;
+            description?: string;
             data: PluginBehavior<unknown>;
         };
         type: PluginStateObject.TypeInfo;
-        is(obj?: import("../../mol-state").StateObject<any, import("../../mol-state").StateObject.Type<any>> | undefined): obj is import("../../mol-state").StateObject<PluginBehavior<unknown>, PluginStateObject.TypeInfo>;
+        is(obj?: import("../../mol-state").StateObject): obj is import("../../mol-state").StateObject<PluginBehavior<unknown>, PluginStateObject.TypeInfo>;
     };
     export class Behavior extends Behavior_base {
     }