molstar
Version:
A comprehensive macromolecular library.
499 lines (498 loc) • 34.3 kB
JavaScript
/**
* Copyright (c) 2019-2022 mol* contributors, licensed under MIT, See LICENSE file for more info.
*
* @author David Sehnal <david.sehnal@gmail.com>
* @author Alexander Rose <alexander.rose@weirdbyte.de>
*/
import { __assign, __awaiter, __generator } from "tslib";
import { ParamDefinition as PD } from '../../../mol-util/param-definition';
import { VisualQualityOptions } from '../../../mol-geo/geometry/base';
import { Structure } from '../../../mol-model/structure';
import { StateObjectRef } from '../../../mol-state';
import { StructureSelectionQueries as Q } from '../../helpers/structure-selection-query';
import { PluginConfig } from '../../../mol-plugin/config';
import { StructureFocusRepresentation } from '../../../mol-plugin/behavior/dynamic/selection/structure-focus-representation';
import { createStructureColorThemeParams } from '../../helpers/structure-representation-params';
import { ChainIdColorThemeProvider } from '../../../mol-theme/color/chain-id';
import { OperatorNameColorThemeProvider } from '../../../mol-theme/color/operator-name';
import { IndexPairBonds } from '../../../mol-model-formats/structure/property/bonds/index-pair';
import { StructConn } from '../../../mol-model-formats/structure/property/bonds/struct_conn';
import { assertUnreachable } from '../../../mol-util/type-helpers';
export function StructureRepresentationPresetProvider(repr) { return repr; }
(function (StructureRepresentationPresetProvider) {
StructureRepresentationPresetProvider.CommonParams = {
ignoreHydrogens: PD.Optional(PD.Boolean(false)),
ignoreLight: PD.Optional(PD.Boolean(false)),
quality: PD.Optional(PD.Select('auto', VisualQualityOptions)),
theme: PD.Optional(PD.Group({
globalName: PD.Optional(PD.Text('')),
globalColorParams: PD.Optional(PD.Value({}, { isHidden: true })),
carbonColor: PD.Optional(PD.Select('chain-id', PD.arrayToOptions(['chain-id', 'operator-name', 'element-symbol']))),
symmetryColor: PD.Optional(PD.Text('')),
symmetryColorParams: PD.Optional(PD.Value({}, { isHidden: true })),
focus: PD.Optional(PD.Group({
name: PD.Optional(PD.Text('')),
params: PD.Optional(PD.Value({}))
}))
}))
};
function getCarbonColorParams(name) {
return name === 'chain-id'
? { name: name, params: ChainIdColorThemeProvider.defaultValues }
: name === 'operator-name'
? { name: name, params: OperatorNameColorThemeProvider.defaultValues }
: { name: name, params: {} };
}
function isSymmetry(structure) {
return structure.units.some(function (u) { return !u.conformation.operator.assembly && u.conformation.operator.spgrOp >= 0; });
}
function reprBuilder(plugin, params, structure) {
var _a, _b, _c, _d, _e, _f, _g, _h, _j, _k, _l, _m, _o, _p;
var update = plugin.state.data.build();
var builder = plugin.builders.structure.representation;
var typeParams = {
quality: plugin.managers.structure.component.state.options.visualQuality,
ignoreHydrogens: !plugin.managers.structure.component.state.options.showHydrogens,
ignoreLight: plugin.managers.structure.component.state.options.ignoreLight,
};
if (params.quality && params.quality !== 'auto')
typeParams.quality = params.quality;
if (params.ignoreHydrogens !== void 0)
typeParams.ignoreHydrogens = !!params.ignoreHydrogens;
if (params.ignoreLight !== void 0)
typeParams.ignoreLight = !!params.ignoreLight;
var color = ((_a = params.theme) === null || _a === void 0 ? void 0 : _a.globalName) ? (_b = params.theme) === null || _b === void 0 ? void 0 : _b.globalName : void 0;
var ballAndStickColor = ((_c = params.theme) === null || _c === void 0 ? void 0 : _c.carbonColor) !== undefined
? __assign({ carbonColor: getCarbonColorParams((_d = params.theme) === null || _d === void 0 ? void 0 : _d.carbonColor) }, (_e = params.theme) === null || _e === void 0 ? void 0 : _e.globalColorParams) : __assign({}, (_f = params.theme) === null || _f === void 0 ? void 0 : _f.globalColorParams);
var symmetryColor = structure && ((_g = params.theme) === null || _g === void 0 ? void 0 : _g.symmetryColor)
? isSymmetry(structure) ? (_h = params.theme) === null || _h === void 0 ? void 0 : _h.symmetryColor : color
: color;
var symmetryColorParams = ((_j = params.theme) === null || _j === void 0 ? void 0 : _j.symmetryColorParams) ? __assign(__assign({}, (_k = params.theme) === null || _k === void 0 ? void 0 : _k.globalColorParams), (_l = params.theme) === null || _l === void 0 ? void 0 : _l.symmetryColorParams) : __assign({}, (_m = params.theme) === null || _m === void 0 ? void 0 : _m.globalColorParams);
var globalColorParams = ((_o = params.theme) === null || _o === void 0 ? void 0 : _o.globalColorParams) ? __assign({}, (_p = params.theme) === null || _p === void 0 ? void 0 : _p.globalColorParams) : undefined;
return { update: update, builder: builder, color: color, symmetryColor: symmetryColor, symmetryColorParams: symmetryColorParams, globalColorParams: globalColorParams, typeParams: typeParams, ballAndStickColor: ballAndStickColor };
}
StructureRepresentationPresetProvider.reprBuilder = reprBuilder;
function updateFocusRepr(plugin, structure, themeName, themeParams) {
return plugin.state.updateBehavior(StructureFocusRepresentation, function (p) {
var c = createStructureColorThemeParams(plugin, structure, 'ball-and-stick', themeName || 'element-symbol', themeParams);
p.surroundingsParams.colorTheme = c;
p.targetParams.colorTheme = c;
});
}
StructureRepresentationPresetProvider.updateFocusRepr = updateFocusRepr;
})(StructureRepresentationPresetProvider || (StructureRepresentationPresetProvider = {}));
var CommonParams = StructureRepresentationPresetProvider.CommonParams;
var reprBuilder = StructureRepresentationPresetProvider.reprBuilder;
var updateFocusRepr = StructureRepresentationPresetProvider.updateFocusRepr;
var auto = StructureRepresentationPresetProvider({
id: 'preset-structure-representation-auto',
display: {
name: 'Automatic',
description: 'Show representations based on the size of the structure. Smaller structures are shown with more detail than larger ones, ranging from atomistic display to coarse surfaces.'
},
params: function () { return CommonParams; },
apply: function (ref, params, plugin) {
var _a, _b;
var structure = (_b = (_a = StateObjectRef.resolveAndCheck(plugin.state.data, ref)) === null || _a === void 0 ? void 0 : _a.obj) === null || _b === void 0 ? void 0 : _b.data;
if (!structure)
return {};
var thresholds = plugin.config.get(PluginConfig.Structure.SizeThresholds) || Structure.DefaultSizeThresholds;
var size = Structure.getSize(structure, thresholds);
var gapFraction = structure.polymerResidueCount / structure.polymerGapCount;
switch (size) {
case Structure.Size.Gigantic:
case Structure.Size.Huge:
return coarseSurface.apply(ref, params, plugin);
case Structure.Size.Large:
return polymerCartoon.apply(ref, params, plugin);
case Structure.Size.Medium:
if (gapFraction > 3) {
return polymerAndLigand.apply(ref, params, plugin);
} // else fall through
case Structure.Size.Small:
// `showCarbohydrateSymbol: true` is nice, e.g., for PDB 1aga
return atomicDetail.apply(ref, __assign(__assign({}, params), { showCarbohydrateSymbol: true }), plugin);
default:
assertUnreachable(size);
}
}
});
var empty = StructureRepresentationPresetProvider({
id: 'preset-structure-representation-empty',
display: { name: 'Empty', description: 'Removes all existing representations.' },
apply: function (ref, params, plugin) {
return __awaiter(this, void 0, void 0, function () {
return __generator(this, function (_a) {
return [2 /*return*/, {}];
});
});
}
});
var BuiltInPresetGroupName = 'Basic';
var polymerAndLigand = StructureRepresentationPresetProvider({
id: 'preset-structure-representation-polymer-and-ligand',
display: {
name: 'Polymer & Ligand', group: BuiltInPresetGroupName,
description: 'Shows polymers as Cartoon, ligands as Ball & Stick, carbohydrates as 3D-SNFG and water molecules semi-transparent.'
},
params: function () { return CommonParams; },
apply: function (ref, params, plugin) {
var _a, _b, _c, _d, _e, _f, _g, _h, _j, _k;
return __awaiter(this, void 0, void 0, function () {
var structureCell, components, structure, cartoonProps, waterType, lipidType, _l, update, builder, typeParams, color, symmetryColor, symmetryColorParams, globalColorParams, ballAndStickColor, representations;
var _m;
return __generator(this, function (_o) {
switch (_o.label) {
case 0:
structureCell = StateObjectRef.resolveAndCheck(plugin.state.data, ref);
if (!structureCell)
return [2 /*return*/, {}];
_m = {};
return [4 /*yield*/, presetStaticComponent(plugin, structureCell, 'polymer')];
case 1:
_m.polymer = _o.sent();
return [4 /*yield*/, presetStaticComponent(plugin, structureCell, 'ligand')];
case 2:
_m.ligand = _o.sent();
return [4 /*yield*/, presetStaticComponent(plugin, structureCell, 'non-standard')];
case 3:
_m.nonStandard = _o.sent();
return [4 /*yield*/, presetStaticComponent(plugin, structureCell, 'branched', { label: 'Carbohydrate' })];
case 4:
_m.branched = _o.sent();
return [4 /*yield*/, presetStaticComponent(plugin, structureCell, 'water')];
case 5:
_m.water = _o.sent();
return [4 /*yield*/, presetStaticComponent(plugin, structureCell, 'ion')];
case 6:
_m.ion = _o.sent();
return [4 /*yield*/, presetStaticComponent(plugin, structureCell, 'lipid')];
case 7:
_m.lipid = _o.sent();
return [4 /*yield*/, presetStaticComponent(plugin, structureCell, 'coarse')];
case 8:
components = (_m.coarse = _o.sent(),
_m);
structure = structureCell.obj.data;
cartoonProps = {
sizeFactor: structure.isCoarseGrained ? 0.8 : 0.2,
};
waterType = (((_c = (_b = (_a = components.water) === null || _a === void 0 ? void 0 : _a.obj) === null || _b === void 0 ? void 0 : _b.data) === null || _c === void 0 ? void 0 : _c.elementCount) || 0) > 50000 ? 'line' : 'ball-and-stick';
lipidType = (((_f = (_e = (_d = components.lipid) === null || _d === void 0 ? void 0 : _d.obj) === null || _e === void 0 ? void 0 : _e.data) === null || _f === void 0 ? void 0 : _f.elementCount) || 0) > 20000 ? 'line' : 'ball-and-stick';
_l = reprBuilder(plugin, params, structure), update = _l.update, builder = _l.builder, typeParams = _l.typeParams, color = _l.color, symmetryColor = _l.symmetryColor, symmetryColorParams = _l.symmetryColorParams, globalColorParams = _l.globalColorParams, ballAndStickColor = _l.ballAndStickColor;
representations = {
polymer: builder.buildRepresentation(update, components.polymer, { type: 'cartoon', typeParams: __assign(__assign({}, typeParams), cartoonProps), color: symmetryColor, colorParams: symmetryColorParams }, { tag: 'polymer' }),
ligand: builder.buildRepresentation(update, components.ligand, { type: 'ball-and-stick', typeParams: typeParams, color: color, colorParams: ballAndStickColor }, { tag: 'ligand' }),
nonStandard: builder.buildRepresentation(update, components.nonStandard, { type: 'ball-and-stick', typeParams: typeParams, color: color, colorParams: ballAndStickColor }, { tag: 'non-standard' }),
branchedBallAndStick: builder.buildRepresentation(update, components.branched, { type: 'ball-and-stick', typeParams: __assign(__assign({}, typeParams), { alpha: 0.3 }), color: color, colorParams: ballAndStickColor }, { tag: 'branched-ball-and-stick' }),
branchedSnfg3d: builder.buildRepresentation(update, components.branched, { type: 'carbohydrate', typeParams: typeParams, color: color, colorParams: globalColorParams }, { tag: 'branched-snfg-3d' }),
water: builder.buildRepresentation(update, components.water, { type: waterType, typeParams: __assign(__assign({}, typeParams), { alpha: 0.6, visuals: waterType === 'line' ? ['intra-bond', 'element-point'] : undefined }), color: color, colorParams: __assign({ carbonColor: { name: 'element-symbol', params: {} } }, globalColorParams) }, { tag: 'water' }),
ion: builder.buildRepresentation(update, components.ion, { type: 'ball-and-stick', typeParams: typeParams, color: color, colorParams: __assign({ carbonColor: { name: 'element-symbol', params: {} } }, globalColorParams) }, { tag: 'ion' }),
lipid: builder.buildRepresentation(update, components.lipid, { type: lipidType, typeParams: __assign(__assign({}, typeParams), { alpha: 0.6, visuals: lipidType === 'line' ? ['intra-bond'] : undefined }), color: color, colorParams: __assign({ carbonColor: { name: 'element-symbol', params: {} } }, globalColorParams) }, { tag: 'lipid' }),
coarse: builder.buildRepresentation(update, components.coarse, { type: 'spacefill', typeParams: typeParams, color: color || 'chain-id', colorParams: globalColorParams }, { tag: 'coarse' })
};
return [4 /*yield*/, update.commit({ revertOnError: false })];
case 9:
_o.sent();
return [4 /*yield*/, updateFocusRepr(plugin, structure, (_h = (_g = params.theme) === null || _g === void 0 ? void 0 : _g.focus) === null || _h === void 0 ? void 0 : _h.name, (_k = (_j = params.theme) === null || _j === void 0 ? void 0 : _j.focus) === null || _k === void 0 ? void 0 : _k.params)];
case 10:
_o.sent();
return [2 /*return*/, { components: components, representations: representations }];
}
});
});
}
});
var proteinAndNucleic = StructureRepresentationPresetProvider({
id: 'preset-structure-representation-protein-and-nucleic',
display: {
name: 'Protein & Nucleic', group: BuiltInPresetGroupName,
description: 'Shows proteins as Cartoon and RNA/DNA as Gaussian Surface.'
},
params: function () { return CommonParams; },
apply: function (ref, params, plugin) {
var _a, _b, _c, _d;
return __awaiter(this, void 0, void 0, function () {
var structureCell, components, structure, cartoonProps, gaussianProps, _e, update, builder, typeParams, symmetryColor, symmetryColorParams, representations;
var _f;
return __generator(this, function (_g) {
switch (_g.label) {
case 0:
structureCell = StateObjectRef.resolveAndCheck(plugin.state.data, ref);
if (!structureCell)
return [2 /*return*/, {}];
_f = {};
return [4 /*yield*/, presetSelectionComponent(plugin, structureCell, 'protein')];
case 1:
_f.protein = _g.sent();
return [4 /*yield*/, presetSelectionComponent(plugin, structureCell, 'nucleic')];
case 2:
components = (_f.nucleic = _g.sent(),
_f);
structure = structureCell.obj.data;
cartoonProps = {
sizeFactor: structure.isCoarseGrained ? 0.8 : 0.2,
};
gaussianProps = {
radiusOffset: structure.isCoarseGrained ? 2 : 0,
smoothness: structure.isCoarseGrained ? 1.0 : 1.5,
};
_e = reprBuilder(plugin, params, structure), update = _e.update, builder = _e.builder, typeParams = _e.typeParams, symmetryColor = _e.symmetryColor, symmetryColorParams = _e.symmetryColorParams;
representations = {
protein: builder.buildRepresentation(update, components.protein, { type: 'cartoon', typeParams: __assign(__assign({}, typeParams), cartoonProps), color: symmetryColor, colorParams: symmetryColorParams }, { tag: 'protein' }),
nucleic: builder.buildRepresentation(update, components.nucleic, { type: 'gaussian-surface', typeParams: __assign(__assign({}, typeParams), gaussianProps), color: symmetryColor, colorParams: symmetryColorParams }, { tag: 'nucleic' })
};
return [4 /*yield*/, update.commit({ revertOnError: true })];
case 3:
_g.sent();
return [4 /*yield*/, updateFocusRepr(plugin, structure, (_b = (_a = params.theme) === null || _a === void 0 ? void 0 : _a.focus) === null || _b === void 0 ? void 0 : _b.name, (_d = (_c = params.theme) === null || _c === void 0 ? void 0 : _c.focus) === null || _d === void 0 ? void 0 : _d.params)];
case 4:
_g.sent();
return [2 /*return*/, { components: components, representations: representations }];
}
});
});
}
});
var coarseSurface = StructureRepresentationPresetProvider({
id: 'preset-structure-representation-coarse-surface',
display: {
name: 'Coarse Surface', group: BuiltInPresetGroupName,
description: 'Shows polymers and lipids as coarse Gaussian Surface.'
},
params: function () { return CommonParams; },
apply: function (ref, params, plugin) {
var _a, _b, _c, _d;
return __awaiter(this, void 0, void 0, function () {
var structureCell, components, structure, size, gaussianProps, _e, update, builder, typeParams, symmetryColor, symmetryColorParams, representations;
var _f;
return __generator(this, function (_g) {
switch (_g.label) {
case 0:
structureCell = StateObjectRef.resolveAndCheck(plugin.state.data, ref);
if (!structureCell)
return [2 /*return*/, {}];
_f = {};
return [4 /*yield*/, presetStaticComponent(plugin, structureCell, 'polymer')];
case 1:
_f.polymer = _g.sent();
return [4 /*yield*/, presetStaticComponent(plugin, structureCell, 'lipid')];
case 2:
components = (_f.lipid = _g.sent(),
_f);
structure = structureCell.obj.data;
size = Structure.getSize(structure);
gaussianProps = Object.create(null);
if (size === Structure.Size.Gigantic) {
Object.assign(gaussianProps, {
traceOnly: !structure.isCoarseGrained,
radiusOffset: 2,
smoothness: 1,
visuals: ['structure-gaussian-surface-mesh']
});
}
else if (size === Structure.Size.Huge) {
Object.assign(gaussianProps, {
radiusOffset: structure.isCoarseGrained ? 2 : 0,
smoothness: 1,
});
}
else if (structure.isCoarseGrained) {
Object.assign(gaussianProps, {
radiusOffset: 2,
smoothness: 1,
});
}
_e = reprBuilder(plugin, params, structure), update = _e.update, builder = _e.builder, typeParams = _e.typeParams, symmetryColor = _e.symmetryColor, symmetryColorParams = _e.symmetryColorParams;
representations = {
polymer: builder.buildRepresentation(update, components.polymer, { type: 'gaussian-surface', typeParams: __assign(__assign({}, typeParams), gaussianProps), color: symmetryColor, colorParams: symmetryColorParams }, { tag: 'polymer' }),
lipid: builder.buildRepresentation(update, components.lipid, { type: 'gaussian-surface', typeParams: __assign(__assign({}, typeParams), gaussianProps), color: symmetryColor, colorParams: symmetryColorParams }, { tag: 'lipid' })
};
return [4 /*yield*/, update.commit({ revertOnError: true })];
case 3:
_g.sent();
return [4 /*yield*/, updateFocusRepr(plugin, structure, (_b = (_a = params.theme) === null || _a === void 0 ? void 0 : _a.focus) === null || _b === void 0 ? void 0 : _b.name, (_d = (_c = params.theme) === null || _c === void 0 ? void 0 : _c.focus) === null || _d === void 0 ? void 0 : _d.params)];
case 4:
_g.sent();
return [2 /*return*/, { components: components, representations: representations }];
}
});
});
}
});
var polymerCartoon = StructureRepresentationPresetProvider({
id: 'preset-structure-representation-polymer-cartoon',
display: {
name: 'Polymer Cartoon', group: BuiltInPresetGroupName,
description: 'Shows polymers as Cartoon.'
},
params: function () { return CommonParams; },
apply: function (ref, params, plugin) {
var _a, _b, _c, _d;
return __awaiter(this, void 0, void 0, function () {
var structureCell, components, structure, cartoonProps, _e, update, builder, typeParams, symmetryColor, symmetryColorParams, representations;
var _f;
return __generator(this, function (_g) {
switch (_g.label) {
case 0:
structureCell = StateObjectRef.resolveAndCheck(plugin.state.data, ref);
if (!structureCell)
return [2 /*return*/, {}];
_f = {};
return [4 /*yield*/, presetStaticComponent(plugin, structureCell, 'polymer')];
case 1:
components = (_f.polymer = _g.sent(),
_f);
structure = structureCell.obj.data;
cartoonProps = {
sizeFactor: structure.isCoarseGrained ? 0.8 : 0.2
};
_e = reprBuilder(plugin, params, structure), update = _e.update, builder = _e.builder, typeParams = _e.typeParams, symmetryColor = _e.symmetryColor, symmetryColorParams = _e.symmetryColorParams;
representations = {
polymer: builder.buildRepresentation(update, components.polymer, { type: 'cartoon', typeParams: __assign(__assign({}, typeParams), cartoonProps), color: symmetryColor, colorParams: symmetryColorParams }, { tag: 'polymer' })
};
return [4 /*yield*/, update.commit({ revertOnError: true })];
case 2:
_g.sent();
return [4 /*yield*/, updateFocusRepr(plugin, structure, (_b = (_a = params.theme) === null || _a === void 0 ? void 0 : _a.focus) === null || _b === void 0 ? void 0 : _b.name, (_d = (_c = params.theme) === null || _c === void 0 ? void 0 : _c.focus) === null || _d === void 0 ? void 0 : _d.params)];
case 3:
_g.sent();
return [2 /*return*/, { components: components, representations: representations }];
}
});
});
}
});
var atomicDetail = StructureRepresentationPresetProvider({
id: 'preset-structure-representation-atomic-detail',
display: {
name: 'Atomic Detail', group: BuiltInPresetGroupName,
description: 'Shows everything in atomic detail with Ball & Stick.'
},
params: function () { return (__assign(__assign({}, CommonParams), { showCarbohydrateSymbol: PD.Boolean(false) })); },
apply: function (ref, params, plugin) {
var _a, _b, _c, _d, _e, _f;
return __awaiter(this, void 0, void 0, function () {
var structureCell, components, structure, highElementCount, lowResidueElementRatio, m, bondsGiven, atomicType, showCarbohydrateSymbol, _g, _h, _j, _k, update, builder, typeParams, color, ballAndStickColor, globalColorParams, colorParams, representations;
var _l, _m;
return __generator(this, function (_o) {
switch (_o.label) {
case 0:
structureCell = StateObjectRef.resolveAndCheck(plugin.state.data, ref);
if (!structureCell)
return [2 /*return*/, {}];
_l = {};
return [4 /*yield*/, presetStaticComponent(plugin, structureCell, 'all')];
case 1:
components = (_l.all = _o.sent(),
_l.branched = undefined,
_l);
structure = structureCell.obj.data;
highElementCount = structure.elementCount > 100000;
lowResidueElementRatio = structure.atomicResidueCount &&
structure.elementCount > 1000 &&
structure.atomicResidueCount / structure.elementCount < 3;
m = structure.models[0];
bondsGiven = !!IndexPairBonds.Provider.get(m) || StructConn.isExhaustive(m);
atomicType = 'ball-and-stick';
if (structure.isCoarseGrained) {
// TODO make configurable?
atomicType = structure.elementCount > 1000000 ? 'point' : 'spacefill';
}
else if (lowResidueElementRatio && !bondsGiven) {
atomicType = 'spacefill';
}
else if (highElementCount) {
atomicType = 'line';
}
showCarbohydrateSymbol = params.showCarbohydrateSymbol && !highElementCount && !lowResidueElementRatio;
if (!showCarbohydrateSymbol) return [3 /*break*/, 3];
_h = (_g = Object).assign;
_j = [components];
_m = {};
return [4 /*yield*/, presetStaticComponent(plugin, structureCell, 'branched', { label: 'Carbohydrate' })];
case 2:
_h.apply(_g, _j.concat([(_m.branched = _o.sent(),
_m)]));
_o.label = 3;
case 3:
_k = reprBuilder(plugin, params, structure), update = _k.update, builder = _k.builder, typeParams = _k.typeParams, color = _k.color, ballAndStickColor = _k.ballAndStickColor, globalColorParams = _k.globalColorParams;
colorParams = lowResidueElementRatio && !bondsGiven
? __assign({ carbonColor: { name: 'element-symbol', params: {} } }, globalColorParams) : ballAndStickColor;
representations = {
all: builder.buildRepresentation(update, components.all, { type: atomicType, typeParams: typeParams, color: color, colorParams: colorParams }, { tag: 'all' }),
};
if (showCarbohydrateSymbol) {
Object.assign(representations, {
snfg3d: builder.buildRepresentation(update, components.branched, { type: 'carbohydrate', typeParams: __assign(__assign({}, typeParams), { alpha: 0.4, visuals: ['carbohydrate-symbol'] }), color: color, colorParams: globalColorParams }, { tag: 'snfg-3d' }),
});
}
return [4 /*yield*/, update.commit({ revertOnError: true })];
case 4:
_o.sent();
return [4 /*yield*/, updateFocusRepr(plugin, structure, (_c = (_b = (_a = params.theme) === null || _a === void 0 ? void 0 : _a.focus) === null || _b === void 0 ? void 0 : _b.name) !== null && _c !== void 0 ? _c : color, (_f = (_e = (_d = params.theme) === null || _d === void 0 ? void 0 : _d.focus) === null || _e === void 0 ? void 0 : _e.params) !== null && _f !== void 0 ? _f : colorParams)];
case 5:
_o.sent();
return [2 /*return*/, { components: components, representations: representations }];
}
});
});
}
});
var illustrative = StructureRepresentationPresetProvider({
id: 'preset-structure-representation-illustrative',
display: {
name: 'Illustrative', group: 'Miscellaneous',
description: '...'
},
params: function () { return (__assign(__assign({}, CommonParams), { showCarbohydrateSymbol: PD.Boolean(false) })); },
apply: function (ref, params, plugin) {
var _a, _b, _c, _d, _e;
return __awaiter(this, void 0, void 0, function () {
var structureCell, components, structure, _f, update, builder, typeParams, color, representations;
var _g;
return __generator(this, function (_h) {
switch (_h.label) {
case 0:
structureCell = StateObjectRef.resolveAndCheck(plugin.state.data, ref);
if (!structureCell)
return [2 /*return*/, {}];
_g = {};
return [4 /*yield*/, presetStaticComponent(plugin, structureCell, 'all')];
case 1:
components = (_g.all = _h.sent(),
_g.branched = undefined,
_g);
structure = structureCell.obj.data;
_f = reprBuilder(plugin, params, structure), update = _f.update, builder = _f.builder, typeParams = _f.typeParams, color = _f.color;
representations = {
all: builder.buildRepresentation(update, components.all, { type: 'spacefill', typeParams: __assign(__assign({}, typeParams), { ignoreLight: true }), color: 'illustrative' }, { tag: 'all' }),
};
return [4 /*yield*/, update.commit({ revertOnError: true })];
case 2:
_h.sent();
return [4 /*yield*/, updateFocusRepr(plugin, structure, (_c = (_b = (_a = params.theme) === null || _a === void 0 ? void 0 : _a.focus) === null || _b === void 0 ? void 0 : _b.name) !== null && _c !== void 0 ? _c : color, (_e = (_d = params.theme) === null || _d === void 0 ? void 0 : _d.focus) === null || _e === void 0 ? void 0 : _e.params)];
case 3:
_h.sent();
return [2 /*return*/, { components: components, representations: representations }];
}
});
});
}
});
export function presetStaticComponent(plugin, structure, type, params) {
return plugin.builders.structure.tryCreateComponentStatic(structure, type, params);
}
export function presetSelectionComponent(plugin, structure, query, params) {
return plugin.builders.structure.tryCreateComponentFromSelection(structure, Q[query], "selection-".concat(query), params);
}
export var PresetStructureRepresentations = {
empty: empty,
auto: auto,
'atomic-detail': atomicDetail,
'polymer-cartoon': polymerCartoon,
'polymer-and-ligand': polymerAndLigand,
'protein-and-nucleic': proteinAndNucleic,
'coarse-surface': coarseSurface,
illustrative: illustrative,
};