npm - molstar - Versions diffs - 2.4.1 → 3.0.0-dev.0 - Mend

molstar 2.4.1 → 3.0.0-dev.0

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.

Files changed (456) hide show

package/lib/commonjs/mol-math/linear-algebra/3d/vec3.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- 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package/lib/commonjs/mol-model/loci.d.ts CHANGED Viewed

@@ -54,51 +54,51 @@ declare namespace Loci {
     export function getPrincipalAxes(loci: Loci): PrincipalAxes | undefined;
     const Granularity: {
         element: (loci: Loci) => Loci;
-        residue: (loci: Loci) => StructureElement.Loci | Structure.Loci | Bond.Loci | Volume.Loci | Volume.Isosurface.Loci | Volume.Cell.Loci | Shape.Loci | ShapeGroup.Loci | {
+        residue: (loci: Loci) => StructureElement.Loci | Structure.Loci | Bond.Loci | Volume.Loci | Volume.Isosurface.Loci | Volume.Cell.Loci | {
             kind: "every-loci";
         } | {
             kind: "empty-loci";
-        } | DataLoci<unknown, unknown>;
-        chain: (loci: Loci) => StructureElement.Loci | Structure.Loci | Bond.Loci | Volume.Loci | Volume.Isosurface.Loci | Volume.Cell.Loci | Shape.Loci | ShapeGroup.Loci | {
+        } | DataLoci<unknown, unknown> | Shape.Loci | ShapeGroup.Loci;
+        chain: (loci: Loci) => StructureElement.Loci | Structure.Loci | Bond.Loci | Volume.Loci | Volume.Isosurface.Loci | Volume.Cell.Loci | {
             kind: "every-loci";
         } | {
             kind: "empty-loci";
-        } | DataLoci<unknown, unknown>;
-        entity: (loci: Loci) => StructureElement.Loci | Structure.Loci | Bond.Loci | Volume.Loci | Volume.Isosurface.Loci | Volume.Cell.Loci | Shape.Loci | ShapeGroup.Loci | {
+        } | DataLoci<unknown, unknown> | Shape.Loci | ShapeGroup.Loci;
+        entity: (loci: Loci) => StructureElement.Loci | Structure.Loci | Bond.Loci | Volume.Loci | Volume.Isosurface.Loci | Volume.Cell.Loci | {
             kind: "every-loci";
         } | {
             kind: "empty-loci";
-        } | DataLoci<unknown, unknown>;
-        model: (loci: Loci) => StructureElement.Loci | Structure.Loci | Bond.Loci | Volume.Loci | Volume.Isosurface.Loci | Volume.Cell.Loci | Shape.Loci | ShapeGroup.Loci | {
+        } | DataLoci<unknown, unknown> | Shape.Loci | ShapeGroup.Loci;
+        model: (loci: Loci) => StructureElement.Loci | Structure.Loci | Bond.Loci | Volume.Loci | Volume.Isosurface.Loci | Volume.Cell.Loci | {
             kind: "every-loci";
         } | {
             kind: "empty-loci";
-        } | DataLoci<unknown, unknown>;
-        operator: (loci: Loci) => StructureElement.Loci | Structure.Loci | Bond.Loci | Volume.Loci | Volume.Isosurface.Loci | Volume.Cell.Loci | Shape.Loci | ShapeGroup.Loci | {
+        } | DataLoci<unknown, unknown> | Shape.Loci | ShapeGroup.Loci;
+        operator: (loci: Loci) => StructureElement.Loci | Structure.Loci | Bond.Loci | Volume.Loci | Volume.Isosurface.Loci | Volume.Cell.Loci | {
             kind: "every-loci";
         } | {
             kind: "empty-loci";
-        } | DataLoci<unknown, unknown>;
-        structure: (loci: Loci) => StructureElement.Loci | Structure.Loci | Bond.Loci | Volume.Loci | Volume.Isosurface.Loci | Volume.Cell.Loci | Shape.Loci | {
+        } | DataLoci<unknown, unknown> | Shape.Loci | ShapeGroup.Loci;
+        structure: (loci: Loci) => StructureElement.Loci | Structure.Loci | Bond.Loci | Volume.Loci | Volume.Isosurface.Loci | Volume.Cell.Loci | {
             kind: "every-loci";
         } | {
             kind: "empty-loci";
-        } | DataLoci<unknown, unknown>;
-        elementInstances: (loci: Loci) => StructureElement.Loci | Structure.Loci | Bond.Loci | Volume.Loci | Volume.Isosurface.Loci | Volume.Cell.Loci | Shape.Loci | ShapeGroup.Loci | {
+        } | DataLoci<unknown, unknown> | Shape.Loci;
+        elementInstances: (loci: Loci) => StructureElement.Loci | Structure.Loci | Bond.Loci | Volume.Loci | Volume.Isosurface.Loci | Volume.Cell.Loci | {
             kind: "every-loci";
         } | {
             kind: "empty-loci";
-        } | DataLoci<unknown, unknown>;
-        residueInstances: (loci: Loci) => StructureElement.Loci | Structure.Loci | Bond.Loci | Volume.Loci | Volume.Isosurface.Loci | Volume.Cell.Loci | Shape.Loci | ShapeGroup.Loci | {
+        } | DataLoci<unknown, unknown> | Shape.Loci | ShapeGroup.Loci;
+        residueInstances: (loci: Loci) => StructureElement.Loci | Structure.Loci | Bond.Loci | Volume.Loci | Volume.Isosurface.Loci | Volume.Cell.Loci | {
             kind: "every-loci";
         } | {
             kind: "empty-loci";
-        } | DataLoci<unknown, unknown>;
-        chainInstances: (loci: Loci) => StructureElement.Loci | Structure.Loci | Bond.Loci | Volume.Loci | Volume.Isosurface.Loci | Volume.Cell.Loci | Shape.Loci | ShapeGroup.Loci | {
+        } | DataLoci<unknown, unknown> | Shape.Loci | ShapeGroup.Loci;
+        chainInstances: (loci: Loci) => StructureElement.Loci | Structure.Loci | Bond.Loci | Volume.Loci | Volume.Isosurface.Loci | Volume.Cell.Loci | {
             kind: "every-loci";
         } | {
             kind: "empty-loci";
-        } | DataLoci<unknown, unknown>;
+        } | DataLoci<unknown, unknown> | Shape.Loci | ShapeGroup.Loci;
     };
     export type Granularity = keyof typeof Granularity;
     export const GranularityOptions: ["element" | "operator" | "residue" | "entity" | "model" | "structure" | "chain" | "elementInstances" | "residueInstances" | "chainInstances", string][];

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

@@ -32,6 +32,10 @@ export declare const PlyShapeParams: {
     xrayShaded: PD.BooleanParam;
     alpha: PD.Numeric;
     quality: PD.Select<"auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest">;
+    material: PD.Converted<import("../../mol-util/material").Material, PD.Normalize<{
+        metalness: number;
+        roughness: number;
+    }>>;
 };
 export declare type PlyShapeParams = typeof PlyShapeParams;
 export declare function shapeFromPly(source: PlyFile, params?: {}): Task<ShapeProvider<PlyFile, Mesh, {
@@ -56,4 +60,8 @@ export declare function shapeFromPly(source: PlyFile, params?: {}): Task<ShapePr
     xrayShaded: PD.BooleanParam;
     alpha: PD.Numeric;
     quality: PD.Select<"auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest">;
+    material: PD.Converted<import("../../mol-util/material").Material, PD.Normalize<{
+        metalness: number;
+        roughness: number;
+    }>>;
 }>>;

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

@@ -27,6 +27,10 @@ export declare const InteractionsInterUnitParams: {
     xrayShaded: PD.BooleanParam;
     alpha: PD.Numeric;
     quality: PD.Select<"auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest">;
+    material: PD.Converted<import("../../../mol-util/material").Material, PD.Normalize<{
+        metalness: number;
+        roughness: number;
+    }>>;
 };
 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 CHANGED Viewed

@@ -27,6 +27,10 @@ export declare const InteractionsIntraUnitParams: {
     xrayShaded: PD.BooleanParam;
     alpha: PD.Numeric;
     quality: PD.Select<"auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest">;
+    material: PD.Converted<import("../../../mol-util/material").Material, PD.Normalize<{
+        metalness: number;
+        roughness: number;
+    }>>;
 };
 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 CHANGED Viewed

@@ -31,6 +31,10 @@ export declare const InteractionsParams: {
     xrayShaded: PD.BooleanParam;
     alpha: PD.Numeric;
     quality: PD.Select<"auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest">;
+    material: PD.Converted<import("../../../mol-util/material").Material, PD.Normalize<{
+        metalness: number;
+        roughness: number;
+    }>>;
 };
 export declare type InteractionsParams = typeof InteractionsParams;
 export declare function getInteractionParams(ctx: ThemeRegistryContext, structure: Structure): {
@@ -56,6 +60,10 @@ export declare function getInteractionParams(ctx: ThemeRegistryContext, structur
     xrayShaded: PD.BooleanParam;
     alpha: PD.Numeric;
     quality: PD.Select<"auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest">;
+    material: PD.Converted<import("../../../mol-util/material").Material, PD.Normalize<{
+        metalness: number;
+        roughness: number;
+    }>>;
 };
 export declare type InteractionRepresentation = StructureRepresentation<InteractionsParams>;
 export declare function InteractionRepresentation(ctx: RepresentationContext, getParams: RepresentationParamsGetter<Structure, InteractionsParams>): InteractionRepresentation;
@@ -82,4 +90,8 @@ export declare const InteractionsRepresentationProvider: StructureRepresentation
     xrayShaded: PD.BooleanParam;
     alpha: PD.Numeric;
     quality: PD.Select<"auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest">;
+    material: PD.Converted<import("../../../mol-util/material").Material, PD.Normalize<{
+        metalness: number;
+        roughness: number;
+    }>>;
 }, "interactions">;

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

@@ -32,6 +32,10 @@ export declare const CrossLinkRestraintCylinderParams: {
     xrayShaded: PD.BooleanParam;
     alpha: PD.Numeric;
     quality: PD.Select<"auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest">;
+    material: PD.Converted<import("../../../mol-util/material").Material, PD.Normalize<{
+        metalness: number;
+        roughness: number;
+    }>>;
 };
 export declare type CrossLinkRestraintCylinderParams = typeof CrossLinkRestraintCylinderParams;
 export declare function CrossLinkRestraintVisual(materialId: number): ComplexVisual<CrossLinkRestraintCylinderParams>;
@@ -57,6 +61,10 @@ export declare const CrossLinkRestraintParams: {
     xrayShaded: PD.BooleanParam;
     alpha: PD.Numeric;
     quality: PD.Select<"auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest">;
+    material: PD.Converted<import("../../../mol-util/material").Material, PD.Normalize<{
+        metalness: number;
+        roughness: number;
+    }>>;
 };
 export declare type CrossLinkRestraintParams = typeof CrossLinkRestraintParams;
 export declare function getCrossLinkRestraintParams(ctx: ThemeRegistryContext, structure: Structure): {
@@ -81,6 +89,10 @@ export declare function getCrossLinkRestraintParams(ctx: ThemeRegistryContext, s
     xrayShaded: PD.BooleanParam;
     alpha: PD.Numeric;
     quality: PD.Select<"auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest">;
+    material: PD.Converted<import("../../../mol-util/material").Material, PD.Normalize<{
+        metalness: number;
+        roughness: number;
+    }>>;
 };
 export declare type CrossLinkRestraintRepresentation = StructureRepresentation<CrossLinkRestraintParams>;
 export declare function CrossLinkRestraintRepresentation(ctx: RepresentationContext, getParams: RepresentationParamsGetter<Structure, CrossLinkRestraintParams>): CrossLinkRestraintRepresentation;
@@ -106,4 +118,8 @@ export declare const CrossLinkRestraintRepresentationProvider: StructureRepresen
     xrayShaded: PD.BooleanParam;
     alpha: PD.Numeric;
     quality: PD.Select<"auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest">;
+    material: PD.Converted<import("../../../mol-util/material").Material, PD.Normalize<{
+        metalness: number;
+        roughness: number;
+    }>>;
 }, CrossLinkRestraint.Tag>;

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

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

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

@@ -7,6 +7,7 @@
 import { PluginBehavior } from '../../../behavior';
 import { ParamDefinition as PD } from '../../../../mol-util/param-definition';
 import { PluginContext } from '../../../context';
+import { Material } from '../../../../mol-util/material';
 declare const StructureFocusRepresentationParams: (plugin: PluginContext) => {
     expandRadius: PD.Numeric;
     targetParams: PD.Group<PD.Normalize<{
@@ -21,6 +22,10 @@ declare const StructureFocusRepresentationParams: (plugin: PluginContext) => {
     components: PD.MultiSelect<"target" | "surroundings" | "interactions">;
     excludeTargetFromSurroundings: PD.BooleanParam;
     ignoreHydrogens: PD.BooleanParam;
+    material: PD.Converted<Material, PD.Normalize<{
+        metalness: number;
+        roughness: number;
+    }>>;
 };
 declare type StructureFocusRepresentationProps = PD.ValuesFor<ReturnType<typeof StructureFocusRepresentationParams>>;
 export declare enum StructureFocusRepresentationTags {

package/lib/commonjs/mol-plugin/behavior/dynamic/selection/structure-focus-representation.js CHANGED Viewed

@@ -19,6 +19,7 @@ var mol_state_1 = require("../../../../mol-state");
 var size_1 = require("../../../../mol-theme/size");
 var param_definition_1 = require("../../../../mol-util/param-definition");
 var commands_1 = require("../../../commands");
+var material_1 = require("../../../../mol-util/material");
 var StructureFocusRepresentationParams = function (plugin) {
     var reprParams = transforms_1.StateTransforms.Representation.StructureRepresentation3D.definition.params(void 0, plugin);
     return {
@@ -41,7 +42,8 @@ var StructureFocusRepresentationParams = function (plugin) {
         }),
         components: param_definition_1.ParamDefinition.MultiSelect(FocusComponents, param_definition_1.ParamDefinition.arrayToOptions(FocusComponents)),
         excludeTargetFromSurroundings: param_definition_1.ParamDefinition.Boolean(false, { label: 'Exclude Target', description: 'Exclude the focus "target" from the surroudings component.' }),
-        ignoreHydrogens: param_definition_1.ParamDefinition.Boolean(false)
+        ignoreHydrogens: param_definition_1.ParamDefinition.Boolean(false),
+        material: material_1.Material.getParam(),
     };
 };
 var FocusComponents = ['target', 'surroundings', 'interactions'];
@@ -69,7 +71,7 @@ var StructureFocusRepresentationBehavior = /** @class */ (function (_super) {
     StructureFocusRepresentationBehavior.prototype.getReprParams = function (reprParams) {
         return (0, tslib_1.__assign)((0, tslib_1.__assign)({}, this.params.targetParams), { type: {
                 name: reprParams.type.name,
-                params: (0, tslib_1.__assign)((0, tslib_1.__assign)({}, reprParams.type.params), { ignoreHydrogens: this.params.ignoreHydrogens })
+                params: (0, tslib_1.__assign)((0, tslib_1.__assign)({}, reprParams.type.params), { ignoreHydrogens: this.params.ignoreHydrogens, material: this.params.material })
             } });
     };
     StructureFocusRepresentationBehavior.prototype.ensureShape = function (cell) {

package/lib/commonjs/mol-plugin/behavior/dynamic/selection/structure-focus-representation.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- 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package/lib/commonjs/mol-plugin/commands.d.ts CHANGED Viewed

@@ -259,13 +259,14 @@ 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>, "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>, "glossy"> | import("../mol-util/param-definition").ParamDefinition.NamedParams<import("../mol-util/param-definition").ParamDefinition.Normalize<unknown>, "plastic">;
+                    light: import("../mol-util/param-definition").ParamDefinition.Normalize<{
+                        inclination: number;
+                        azimuth: number;
+                        color: import("../mol-util/color").Color;
+                        intensity: number;
+                    }>[];
+                    ambientColor: import("../mol-util/color").Color;
+                    ambientIntensity: number;
                     clip: import("../mol-util/param-definition").ParamDefinition.Normalize<{
                         variant: any;
                         objects: any;
@@ -325,6 +326,7 @@ export declare const PluginCommands: {
                         flatShaded: any;
                         xrayShaded: any;
                         quality: any;
+                        material: any;
                     }>, "on">;
                 }>>;
             }>> | ((old: Canvas3DProps) => Partial<Canvas3DProps> | void);

package/lib/commonjs/mol-plugin/spec.js CHANGED Viewed

@@ -70,6 +70,7 @@ var DefaultPluginSpec = function () { return ({
         PluginSpec.Action(transforms_1.StateTransforms.Representation.UnwindStructureAssemblyRepresentation3D),
         PluginSpec.Action(transforms_1.StateTransforms.Representation.OverpaintStructureRepresentation3DFromScript),
         PluginSpec.Action(transforms_1.StateTransforms.Representation.TransparencyStructureRepresentation3DFromScript),
+        PluginSpec.Action(transforms_1.StateTransforms.Representation.SubstanceStructureRepresentation3DFromScript),
         PluginSpec.Action(volume_1.AssignColorVolume),
         PluginSpec.Action(transforms_1.StateTransforms.Volume.VolumeFromCcp4),
         PluginSpec.Action(transforms_1.StateTransforms.Volume.VolumeFromDsn6),

package/lib/commonjs/mol-plugin/spec.js.map CHANGED Viewed

	@@ -1 +1 @@
1	- {"version":3,"file":"spec.js","sourceRoot":"","sources":["../../../src/mol-plugin/spec.ts"],"names":[],"mappings":";AAAA;;;;;GAKG;;;AAGH,0FAA+F;AAC/F,kFAAuF;AACvF,kFAAuF;AACvF,0FAA+F;AAI/F,uCAA6C;AAC7C,8GAA2G;AAG3G,uDAA2D;AAC3D,6DAAuE;AACvE,6DAAiE;AACjE,6FAAyJ;AACzJ,kGAAuG;AACvG,wFAA6F;AAgB7F,IAAU,UAAU,CAoBnB;AApBD,WAAU,UAAU;IAQhB,SAAgB,MAAM,CAAC,MAAsC,EAAE,MAAwH;QACnL,OAAO,EAAE,MAAM,QAAA,EAAE,aAAa,EAAE,MAAM,IAAI,MAAM,CAAC,aAAa,EAAE,UAAU,EAAE,MAAM,IAAI,MAAM,CAAC,UAAU,EAAE,CAAC;IAC9G,CAAC;IAFe,iBAAM,SAErB,CAAA;IAOD,SAAgB,QAAQ,CAA6B,WAAc,EAAE,aAAuD;QAAvD,8BAAA,EAAA,kBAAuD;QACxH,OAAO,EAAE,WAAW,aAAA,EAAE,aAAa,eAAA,EAAE,CAAC;IAC1C,CAAC;IAFe,mBAAQ,WAEvB,CAAA;AACL,CAAC,EApBS,UAAU,KAAV,UAAU,QAoBnB;AAlCQ,gCAAU;AAoCZ,IAAM,iBAAiB,GAAG,cAAkB,OAAA,CAAC;IAChD,OAAO,EAAE;QACL,UAAU,CAAC,MAAM,CAAC,sBAAY,CAAC,SAAS,CAAC,iBAAiB,CAAC;QAC3D,UAAU,CAAC,MAAM,CAAC,sBAAY,CAAC,SAAS,CAAC,aAAa,CAAC;QACvD,UAAU,CAAC,MAAM,CAAC,sBAAY,CAAC,MAAM,CAAC,eAAe,CAAC;QACtD,UAAU,CAAC,MAAM,CAAC,sBAAY,CAAC,UAAU,CAAC,YAAY,CAAC;QACvD,UAAU,CAAC,MAAM,CAAC,sBAAY,CAAC,UAAU,CAAC,SAAS,CAAC;QACpD,UAAU,CAAC,MAAM,CAAC,sBAAY,CAAC,SAAS,CAAC,sBAAsB,CAAC;QAChE,UAAU,CAAC,MAAM,CAAC,sBAAY,CAAC,SAAS,CAAC,0BAA0B,CAAC;QAEpE,mBAAmB;QACnB,UAAU,CAAC,MAAM,CAAC,kCAAmB,CAAC;QACtC,UAAU,CAAC,MAAM,CAAC,oCAAqB,CAAC;QACxC,UAAU,CAAC,MAAM,CAAC,4CAA6B,CAAC;QAEhD,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,IAAI,CAAC,QAAQ,CAAC;QAChD,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,IAAI,CAAC,QAAQ,CAAC;QAChD,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,IAAI,CAAC,SAAS,CAAC;QACjD,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,IAAI,CAAC,SAAS,CAAC;QAEjD,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,KAAK,CAAC,mBAAmB,CAAC;QAC5D,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,KAAK,CAAC,qBAAqB,CAAC;QAC9D,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,KAAK,CAAC,iBAAiB,CAAC;QAC1D,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,KAAK,CAAC,8BAA8B,CAAC;QACvE,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,KAAK,CAAC,kBAAkB,CAAC;QAC3D,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,KAAK,CAAC,uBAAuB,CAAC;QAChE,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,KAAK,CAAC,mBAAmB,CAAC;QAC5D,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,KAAK,CAAC,4BAA4B,CAAC;QACrE,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,yBAAyB,CAAC;QAC3E,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,6BAA6B,CAAC;QAC/E,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,0BAA0B,CAAC;QAC5E,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,6BAA6B,CAAC;QAC/E,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,0BAA0B,CAAC;QAC5E,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,gCAAgC,CAAC;QAClF,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,eAAe,CAAC;QACjE,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,sBAAsB,CAAC;QACxE,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,gCAAgC,CAAC;QAClF,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,6BAA6B,CAAC;QAC/E,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,uCAAuC,CAAC;QACzF,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,4CAA4C,CAAC;QAC9F,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,+CAA+C,CAAC;~~QAEjG~~,UAAU,CAAC,MAAM,CAAC,0BAAiB,CAAC;QACpC,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,MAAM,CAAC,cAAc,CAAC;QACxD,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,MAAM,CAAC,cAAc,CAAC;QACxD,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,MAAM,CAAC,cAAc,CAAC;QACxD,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,MAAM,CAAC,YAAY,CAAC;QACtD,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,sBAAsB,CAAC;KAC3E;IACD,SAAS,EAAE;QACP,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,cAAc,CAAC,aAAa,CAAC;QACjE,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,cAAc,CAAC,UAAU,CAAC;QAC9D,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,cAAc,CAAC,wBAAwB,CAAC;QAC5E,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,cAAc,CAAC,SAAS,CAAC;QAC7D,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,MAAM,CAAC,SAAS,CAAC;QACrD,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,MAAM,CAAC,gBAAgB,CAAC;QAC5D,UAAU,CAAC,QAAQ,CAAC,6DAA4B,CAAC;QAEjD,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,WAAW,CAAC,aAAa,CAAC;QAC9D,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,WAAW,CAAC,qBAAqB,CAAC;QACtE,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,WAAW,CAAC,2BAA2B,CAAC;QAC5E,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,WAAW,CAAC,YAAY,CAAC;QAC7D,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,WAAW,CAAC,kBAAkB,CAAC;QACnE,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,WAAW,CAAC,YAAY,CAAC;QAC7D,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,WAAW,CAAC,kBAAkB,CAAC;KACtE;IACD,UAAU,EAAE;QACR,+BAAiB;QACjB,+BAAiB;QACjB,uCAAqB;QACrB,uCAAqB;QACrB,qCAAoB;QACpB,+CAAyB;KAC5B;CACJ,CAAC,~~EA1EiD~~,~~CA0EjD~~,CAAC;~~AA1EU~~,QAAA,iBAAiB,~~qBA0E3B~~"}
1	+ {"version":3,"file":"spec.js","sourceRoot":"","sources":["../../../src/mol-plugin/spec.ts"],"names":[],"mappings":";AAAA;;;;;GAKG;;;AAGH,0FAA+F;AAC/F,kFAAuF;AACvF,kFAAuF;AACvF,0FAA+F;AAI/F,uCAA6C;AAC7C,8GAA2G;AAG3G,uDAA2D;AAC3D,6DAAuE;AACvE,6DAAiE;AACjE,6FAAyJ;AACzJ,kGAAuG;AACvG,wFAA6F;AAgB7F,IAAU,UAAU,CAoBnB;AApBD,WAAU,UAAU;IAQhB,SAAgB,MAAM,CAAC,MAAsC,EAAE,MAAwH;QACnL,OAAO,EAAE,MAAM,QAAA,EAAE,aAAa,EAAE,MAAM,IAAI,MAAM,CAAC,aAAa,EAAE,UAAU,EAAE,MAAM,IAAI,MAAM,CAAC,UAAU,EAAE,CAAC;IAC9G,CAAC;IAFe,iBAAM,SAErB,CAAA;IAOD,SAAgB,QAAQ,CAA6B,WAAc,EAAE,aAAuD;QAAvD,8BAAA,EAAA,kBAAuD;QACxH,OAAO,EAAE,WAAW,aAAA,EAAE,aAAa,eAAA,EAAE,CAAC;IAC1C,CAAC;IAFe,mBAAQ,WAEvB,CAAA;AACL,CAAC,EApBS,UAAU,KAAV,UAAU,QAoBnB;AAlCQ,gCAAU;AAoCZ,IAAM,iBAAiB,GAAG,cAAkB,OAAA,CAAC;IAChD,OAAO,EAAE;QACL,UAAU,CAAC,MAAM,CAAC,sBAAY,CAAC,SAAS,CAAC,iBAAiB,CAAC;QAC3D,UAAU,CAAC,MAAM,CAAC,sBAAY,CAAC,SAAS,CAAC,aAAa,CAAC;QACvD,UAAU,CAAC,MAAM,CAAC,sBAAY,CAAC,MAAM,CAAC,eAAe,CAAC;QACtD,UAAU,CAAC,MAAM,CAAC,sBAAY,CAAC,UAAU,CAAC,YAAY,CAAC;QACvD,UAAU,CAAC,MAAM,CAAC,sBAAY,CAAC,UAAU,CAAC,SAAS,CAAC;QACpD,UAAU,CAAC,MAAM,CAAC,sBAAY,CAAC,SAAS,CAAC,sBAAsB,CAAC;QAChE,UAAU,CAAC,MAAM,CAAC,sBAAY,CAAC,SAAS,CAAC,0BAA0B,CAAC;QAEpE,mBAAmB;QACnB,UAAU,CAAC,MAAM,CAAC,kCAAmB,CAAC;QACtC,UAAU,CAAC,MAAM,CAAC,oCAAqB,CAAC;QACxC,UAAU,CAAC,MAAM,CAAC,4CAA6B,CAAC;QAEhD,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,IAAI,CAAC,QAAQ,CAAC;QAChD,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,IAAI,CAAC,QAAQ,CAAC;QAChD,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,IAAI,CAAC,SAAS,CAAC;QACjD,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,IAAI,CAAC,SAAS,CAAC;QAEjD,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,KAAK,CAAC,mBAAmB,CAAC;QAC5D,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,KAAK,CAAC,qBAAqB,CAAC;QAC9D,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,KAAK,CAAC,iBAAiB,CAAC;QAC1D,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,KAAK,CAAC,8BAA8B,CAAC;QACvE,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,KAAK,CAAC,kBAAkB,CAAC;QAC3D,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,KAAK,CAAC,uBAAuB,CAAC;QAChE,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,KAAK,CAAC,mBAAmB,CAAC;QAC5D,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,KAAK,CAAC,4BAA4B,CAAC;QACrE,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,yBAAyB,CAAC;QAC3E,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,6BAA6B,CAAC;QAC/E,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,0BAA0B,CAAC;QAC5E,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,6BAA6B,CAAC;QAC/E,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,0BAA0B,CAAC;QAC5E,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,gCAAgC,CAAC;QAClF,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,eAAe,CAAC;QACjE,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,sBAAsB,CAAC;QACxE,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,gCAAgC,CAAC;QAClF,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,6BAA6B,CAAC;QAC/E,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,uCAAuC,CAAC;QACzF,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,4CAA4C,CAAC;QAC9F,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,+CAA+C,CAAC;QACjG,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,4CAA4C,CAAC;QAE9F,UAAU,CAAC,MAAM,CAAC,0BAAiB,CAAC;QACpC,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,MAAM,CAAC,cAAc,CAAC;QACxD,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,MAAM,CAAC,cAAc,CAAC;QACxD,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,MAAM,CAAC,cAAc,CAAC;QACxD,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,MAAM,CAAC,YAAY,CAAC;QACtD,UAAU,CAAC,MAAM,CAAC,4BAAe,CAAC,cAAc,CAAC,sBAAsB,CAAC;KAC3E;IACD,SAAS,EAAE;QACP,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,cAAc,CAAC,aAAa,CAAC;QACjE,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,cAAc,CAAC,UAAU,CAAC;QAC9D,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,cAAc,CAAC,wBAAwB,CAAC;QAC5E,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,cAAc,CAAC,SAAS,CAAC;QAC7D,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,MAAM,CAAC,SAAS,CAAC;QACrD,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,MAAM,CAAC,gBAAgB,CAAC;QAC5D,UAAU,CAAC,QAAQ,CAAC,6DAA4B,CAAC;QAEjD,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,WAAW,CAAC,aAAa,CAAC;QAC9D,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,WAAW,CAAC,qBAAqB,CAAC;QACtE,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,WAAW,CAAC,2BAA2B,CAAC;QAC5E,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,WAAW,CAAC,YAAY,CAAC;QAC7D,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,WAAW,CAAC,kBAAkB,CAAC;QACnE,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,WAAW,CAAC,YAAY,CAAC;QAC7D,UAAU,CAAC,QAAQ,CAAC,0BAAe,CAAC,WAAW,CAAC,kBAAkB,CAAC;KACtE;IACD,UAAU,EAAE;QACR,+BAAiB;QACjB,+BAAiB;QACjB,uCAAqB;QACrB,uCAAqB;QACrB,qCAAoB;QACpB,+CAAyB;KAC5B;CACJ,CAAC,EA3EiD,CA2EjD,CAAC;AA3EU,QAAA,iBAAiB,qBA2E3B"}

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

@@ -38,6 +38,7 @@ declare class ViewportScreenshotHelper extends PluginComponent {
             flatShaded: boolean;
             xrayShaded: boolean;
             quality: "auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest";
+            material: import("../../mol-util/material").Material;
         }>, "on">>;
     };
     readonly behaviors: {
@@ -59,6 +60,7 @@ declare class ViewportScreenshotHelper extends PluginComponent {
                 flatShaded: boolean;
                 xrayShaded: boolean;
                 quality: "auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest";
+                material: import("../../mol-util/material").Material;
             }>, "on">>;
         }>>;
         cropParams: import("rxjs").BehaviorSubject<{
@@ -88,6 +90,7 @@ declare class ViewportScreenshotHelper extends PluginComponent {
             flatShaded: boolean;
             xrayShaded: boolean;
             quality: "auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest";
+            material: import("../../mol-util/material").Material;
         }>, "on">>;
     }>;
     get cropParams(): {

package/lib/commonjs/mol-plugin-state/builder/structure/representation-preset.d.ts CHANGED Viewed

@@ -31,9 +31,9 @@ export declare namespace StructureRepresentationPresetProvider {
         ignoreHydrogens: PD.Base<boolean | undefined>;
         quality: PD.Base<"auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest" | undefined>;
         theme: PD.Base<PD.Normalize<{
-            globalName: "uniform" | "occupancy" | "element-index" | "element-symbol" | "carbohydrate-symbol" | "chain-id" | "operator-name" | "molecule-type" | "polymer-id" | "polymer-index" | "residue-name" | "secondary-structure" | "sequence-id" | "shape-group" | "unit-index" | "uncertainty" | "entity-source" | "illustrative" | "hydrophobicity" | "model-index" | "operator-hkl" | "partial-charge" | "atom-id" | "entity-id" | undefined;
+            globalName: "uniform" | "occupancy" | "element-index" | "element-symbol" | "shape-group" | "uncertainty" | "carbohydrate-symbol" | "chain-id" | "operator-name" | "molecule-type" | "polymer-id" | "polymer-index" | "residue-name" | "secondary-structure" | "sequence-id" | "unit-index" | "entity-source" | "illustrative" | "hydrophobicity" | "model-index" | "operator-hkl" | "partial-charge" | "atom-id" | "entity-id" | undefined;
             carbonColor: "element-symbol" | "chain-id" | "operator-name" | undefined;
-            symmetryColor: "uniform" | "occupancy" | "element-index" | "element-symbol" | "carbohydrate-symbol" | "chain-id" | "operator-name" | "molecule-type" | "polymer-id" | "polymer-index" | "residue-name" | "secondary-structure" | "sequence-id" | "shape-group" | "unit-index" | "uncertainty" | "entity-source" | "illustrative" | "hydrophobicity" | "model-index" | "operator-hkl" | "partial-charge" | "atom-id" | "entity-id" | undefined;
+            symmetryColor: "uniform" | "occupancy" | "element-index" | "element-symbol" | "shape-group" | "uncertainty" | "carbohydrate-symbol" | "chain-id" | "operator-name" | "molecule-type" | "polymer-id" | "polymer-index" | "residue-name" | "secondary-structure" | "sequence-id" | "unit-index" | "entity-source" | "illustrative" | "hydrophobicity" | "model-index" | "operator-hkl" | "partial-charge" | "atom-id" | "entity-id" | undefined;
             focus: PD.Normalize<{
                 name: any;
                 params: any;
@@ -44,8 +44,8 @@ export declare namespace StructureRepresentationPresetProvider {
     function reprBuilder(plugin: PluginContext, params: CommonParams, structure?: Structure): {
         update: import("../../../mol-state/state/builder").StateBuilder.Root;
         builder: import("./representation").StructureRepresentationBuilder;
-        color: "uniform" | "occupancy" | "element-index" | "element-symbol" | "carbohydrate-symbol" | "chain-id" | "operator-name" | "molecule-type" | "polymer-id" | "polymer-index" | "residue-name" | "secondary-structure" | "sequence-id" | "shape-group" | "unit-index" | "uncertainty" | "entity-source" | "illustrative" | "hydrophobicity" | "model-index" | "operator-hkl" | "partial-charge" | "atom-id" | "entity-id" | undefined;
-        symmetryColor: "uniform" | "occupancy" | "element-index" | "element-symbol" | "carbohydrate-symbol" | "chain-id" | "operator-name" | "molecule-type" | "polymer-id" | "polymer-index" | "residue-name" | "secondary-structure" | "sequence-id" | "shape-group" | "unit-index" | "uncertainty" | "entity-source" | "illustrative" | "hydrophobicity" | "model-index" | "operator-hkl" | "partial-charge" | "atom-id" | "entity-id" | undefined;
+        color: "uniform" | "occupancy" | "element-index" | "element-symbol" | "shape-group" | "uncertainty" | "carbohydrate-symbol" | "chain-id" | "operator-name" | "molecule-type" | "polymer-id" | "polymer-index" | "residue-name" | "secondary-structure" | "sequence-id" | "unit-index" | "entity-source" | "illustrative" | "hydrophobicity" | "model-index" | "operator-hkl" | "partial-charge" | "atom-id" | "entity-id" | undefined;
+        symmetryColor: "uniform" | "occupancy" | "element-index" | "element-symbol" | "shape-group" | "uncertainty" | "carbohydrate-symbol" | "chain-id" | "operator-name" | "molecule-type" | "polymer-id" | "polymer-index" | "residue-name" | "secondary-structure" | "sequence-id" | "unit-index" | "entity-source" | "illustrative" | "hydrophobicity" | "model-index" | "operator-hkl" | "partial-charge" | "atom-id" | "entity-id" | undefined;
         typeParams: {
             quality: "auto" | "medium" | "high" | "low" | "custom" | "highest" | "higher" | "lower" | "lowest";
             ignoreHydrogens: boolean;

package/lib/commonjs/mol-plugin-state/helpers/structure-substance.d.ts ADDED Viewed

@@ -0,0 +1,13 @@
+/**
+ * Copyright (c) 2021 mol* contributors, licensed under MIT, See LICENSE file for more info.
+ *
+ * @author Alexander Rose <alexander.rose@weirdbyte.de>
+ * @author David Sehnal <david.sehnal@gmail.com>
+ */
+import { Structure, StructureElement } from '../../mol-model/structure';
+import { PluginContext } from '../../mol-plugin/context';
+import { StructureComponentRef } from '../manager/structure/hierarchy-state';
+import { EmptyLoci } from '../../mol-model/loci';
+import { Material } from '../../mol-util/material';
+export declare function setStructureSubstance(plugin: PluginContext, components: StructureComponentRef[], material: Material | -1, lociGetter: (structure: Structure) => Promise<StructureElement.Loci | EmptyLoci>, types?: string[]): Promise<void>;
+export declare function clearStructureSubstance(plugin: PluginContext, components: StructureComponentRef[], types?: string[]): Promise<void>;