molstar
Version:
A comprehensive macromolecular library.
96 lines (95 loc) • 6.18 kB
JavaScript
;
/**
* Copyright (c) 2018-2022 mol* contributors, licensed under MIT, See LICENSE file for more info.
*
* @author Alexander Rose <alexander.rose@weirdbyte.de>
*/
Object.defineProperty(exports, "__esModule", { value: true });
exports.CartoonRepresentationProvider = exports.CartoonRepresentation = exports.getCartoonParams = exports.CartoonParams = void 0;
var tslib_1 = require("tslib");
var structure_1 = require("../../../mol-model/structure");
var representation_1 = require("../../../mol-repr/representation");
var param_definition_1 = require("../../../mol-util/param-definition");
var representation_2 = require("../representation");
var units_representation_1 = require("../units-representation");
var nucleotide_block_mesh_1 = require("../visual/nucleotide-block-mesh");
var nucleotide_ring_mesh_1 = require("../visual/nucleotide-ring-mesh");
var polymer_direction_wedge_1 = require("../visual/polymer-direction-wedge");
var polymer_gap_cylinder_1 = require("../visual/polymer-gap-cylinder");
var polymer_trace_mesh_1 = require("../visual/polymer-trace-mesh");
var secondary_structure_1 = require("../../../mol-model-props/computed/secondary-structure");
var helix_orientation_1 = require("../../../mol-model-props/computed/helix-orientation");
var base_1 = require("../../../mol-geo/geometry/base");
var CartoonVisuals = {
'polymer-trace': function (ctx, getParams) { return (0, units_representation_1.UnitsRepresentation)('Polymer trace mesh', ctx, getParams, polymer_trace_mesh_1.PolymerTraceVisual); },
'polymer-gap': function (ctx, getParams) { return (0, units_representation_1.UnitsRepresentation)('Polymer gap cylinder', ctx, getParams, polymer_gap_cylinder_1.PolymerGapVisual); },
'nucleotide-block': function (ctx, getParams) { return (0, units_representation_1.UnitsRepresentation)('Nucleotide block mesh', ctx, getParams, nucleotide_block_mesh_1.NucleotideBlockVisual); },
'nucleotide-ring': function (ctx, getParams) { return (0, units_representation_1.UnitsRepresentation)('Nucleotide ring mesh', ctx, getParams, nucleotide_ring_mesh_1.NucleotideRingVisual); },
'direction-wedge': function (ctx, getParams) { return (0, units_representation_1.UnitsRepresentation)('Polymer direction wedge', ctx, getParams, polymer_direction_wedge_1.PolymerDirectionVisual); }
};
exports.CartoonParams = tslib_1.__assign(tslib_1.__assign(tslib_1.__assign(tslib_1.__assign(tslib_1.__assign(tslib_1.__assign({}, polymer_trace_mesh_1.PolymerTraceParams), polymer_gap_cylinder_1.PolymerGapParams), nucleotide_block_mesh_1.NucleotideBlockParams), nucleotide_ring_mesh_1.NucleotideRingParams), polymer_direction_wedge_1.PolymerDirectionParams), { sizeFactor: param_definition_1.ParamDefinition.Numeric(0.2, { min: 0, max: 10, step: 0.01 }), visuals: param_definition_1.ParamDefinition.MultiSelect(['polymer-trace', 'polymer-gap', 'nucleotide-ring'], param_definition_1.ParamDefinition.objectToOptions(CartoonVisuals)), bumpFrequency: param_definition_1.ParamDefinition.Numeric(2, { min: 0, max: 10, step: 0.1 }, base_1.BaseGeometry.ShadingCategory) });
function getCartoonParams(ctx, structure) {
var params = param_definition_1.ParamDefinition.clone(exports.CartoonParams);
var hasNucleotides = false;
var hasGaps = false;
structure.units.forEach(function (u) {
if (!hasNucleotides && structure_1.Unit.isAtomic(u) && u.nucleotideElements.length)
hasNucleotides = true;
if (!hasGaps && u.gapElements.length)
hasGaps = true;
});
params.visuals.defaultValue = ['polymer-trace'];
if (hasNucleotides)
params.visuals.defaultValue.push('nucleotide-ring');
if (hasGaps)
params.visuals.defaultValue.push('polymer-gap');
return params;
}
exports.getCartoonParams = getCartoonParams;
function CartoonRepresentation(ctx, getParams) {
return representation_1.Representation.createMulti('Cartoon', ctx, getParams, representation_2.StructureRepresentationStateBuilder, CartoonVisuals);
}
exports.CartoonRepresentation = CartoonRepresentation;
exports.CartoonRepresentationProvider = (0, representation_2.StructureRepresentationProvider)({
name: 'cartoon',
label: 'Cartoon',
description: 'Displays ribbons, planks, tubes smoothly following the trace atoms of polymers.',
factory: CartoonRepresentation,
getParams: getCartoonParams,
defaultValues: param_definition_1.ParamDefinition.getDefaultValues(exports.CartoonParams),
defaultColorTheme: { name: 'chain-id' },
defaultSizeTheme: { name: 'uniform' },
isApplicable: function (structure) { return structure.polymerResidueCount > 0; },
ensureCustomProperties: {
attach: function (ctx, structure) { return tslib_1.__awaiter(void 0, void 0, void 0, function () {
var _i, _a, m;
return tslib_1.__generator(this, function (_b) {
switch (_b.label) {
case 0: return [4 /*yield*/, secondary_structure_1.SecondaryStructureProvider.attach(ctx, structure, void 0, true)];
case 1:
_b.sent();
_i = 0, _a = structure.models;
_b.label = 2;
case 2:
if (!(_i < _a.length)) return [3 /*break*/, 5];
m = _a[_i];
return [4 /*yield*/, helix_orientation_1.HelixOrientationProvider.attach(ctx, m, void 0, true)];
case 3:
_b.sent();
_b.label = 4;
case 4:
_i++;
return [3 /*break*/, 2];
case 5: return [2 /*return*/];
}
});
}); },
detach: function (data) {
secondary_structure_1.SecondaryStructureProvider.ref(data, false);
for (var _i = 0, _a = data.models; _i < _a.length; _i++) {
var m = _a[_i];
helix_orientation_1.HelixOrientationProvider.ref(m, false);
}
}
}
});