molstar 3.0.0-dev.0 → 3.0.0-dev.2

package/lib/commonjs/tests/browser/render-spheres.js

@@ -1,41 +0,0 @@
-"use strict";
-/**
- * Copyright (c) 2019 mol* contributors, licensed under MIT, See LICENSE file for more info.
- *
- * @author Alexander Rose <alexander.rose@weirdbyte.de>
- */
-Object.defineProperty(exports, "__esModule", { value: true });
-require("./index.html");
-var util_1 = require("../../mol-canvas3d/util");
-var canvas3d_1 = require("../../mol-canvas3d/canvas3d");
-var spheres_builder_1 = require("../../mol-geo/geometry/spheres/spheres-builder");
-var spheres_1 = require("../../mol-geo/geometry/spheres/spheres");
-var color_1 = require("../../mol-util/color");
-var render_object_1 = require("../../mol-gl/render-object");
-var representation_1 = require("../../mol-repr/representation");
-var param_definition_1 = require("../../mol-util/param-definition");
-var parent = document.getElementById('app');
-parent.style.width = '100%';
-parent.style.height = '100%';
-var canvas = document.createElement('canvas');
-parent.appendChild(canvas);
-(0, util_1.resizeCanvas)(canvas, parent);
-var canvas3d = canvas3d_1.Canvas3D.create(canvas3d_1.Canvas3DContext.fromCanvas(canvas));
-canvas3d.animate();
-function spheresRepr() {
-    var spheresBuilder = spheres_builder_1.SpheresBuilder.create(3, 1);
-    spheresBuilder.add(0, 0, 0, 0);
-    spheresBuilder.add(5, 0, 0, 0);
-    spheresBuilder.add(-4, 1, 0, 0);
-    var spheres = spheresBuilder.getSpheres();
-    var props = param_definition_1.ParamDefinition.getDefaultValues(spheres_1.Spheres.Utils.Params);
-    var values = spheres_1.Spheres.Utils.createValuesSimple(spheres, {}, (0, color_1.Color)(0xFF0000), 1);
-    var state = spheres_1.Spheres.Utils.createRenderableState(props);
-    var renderObject = (0, render_object_1.createRenderObject)('spheres', values, state, -1);
-    console.log(renderObject);
-    var repr = representation_1.Representation.fromRenderObject('spheres', renderObject);
-    return repr;
-}
-canvas3d.add(spheresRepr());
-canvas3d.requestCameraReset();
-//# sourceMappingURL=render-spheres.js.map

package/lib/commonjs/tests/browser/render-spheres.js.map

@@ -1 +0,0 @@
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package/lib/commonjs/tests/browser/render-structure.d.ts

@@ -1,6 +0,0 @@
-/**
- * Copyright (c) 2019 mol* contributors, licensed under MIT, See LICENSE file for more info.
- *
- * @author Alexander Rose <alexander.rose@weirdbyte.de>
- */
-import './index.html';

package/lib/commonjs/tests/browser/render-structure.js

@@ -1,289 +0,0 @@
-"use strict";
-/**
- * Copyright (c) 2019 mol* contributors, licensed under MIT, See LICENSE file for more info.
- *
- * @author Alexander Rose <alexander.rose@weirdbyte.de>
- */
-Object.defineProperty(exports, "__esModule", { value: true });
-var tslib_1 = require("tslib");
-require("./index.html");
-var canvas3d_1 = require("../../mol-canvas3d/canvas3d");
-var cif_1 = require("../../mol-io/reader/cif");
-var structure_1 = require("../../mol-model/structure");
-var color_1 = require("../../mol-theme/color");
-var size_1 = require("../../mol-theme/size");
-var cartoon_1 = require("../../mol-repr/structure/representation/cartoon");
-var mmcif_1 = require("../../mol-model-formats/structure/mmcif");
-var molecular_surface_1 = require("../../mol-repr/structure/representation/molecular-surface");
-var ball_and_stick_1 = require("../../mol-repr/structure/representation/ball-and-stick");
-var gaussian_surface_1 = require("../../mol-repr/structure/representation/gaussian-surface");
-var util_1 = require("../../mol-canvas3d/util");
-var representation_1 = require("../../mol-repr/representation");
-var operators_1 = require("rxjs/operators");
-var marker_action_1 = require("../../mol-util/marker-action");
-var loci_1 = require("../../mol-model/loci");
-var label_1 = require("../../mol-theme/label");
-var interactions_1 = require("../../mol-model-props/computed/representations/interactions");
-var interactions_2 = require("../../mol-model-props/computed/interactions");
-var secondary_structure_1 = require("../../mol-model-props/computed/secondary-structure");
-var synchronous_1 = require("../../mol-task/execution/synchronous");
-var assets_1 = require("../../mol-util/assets");
-var prop_1 = require("../../extensions/anvil/prop");
-var representation_2 = require("../../extensions/anvil/representation");
-var parent = document.getElementById('app');
-parent.style.width = '100%';
-parent.style.height = '100%';
-var canvas = document.createElement('canvas');
-parent.appendChild(canvas);
-(0, util_1.resizeCanvas)(canvas, parent);
-var canvas3d = canvas3d_1.Canvas3D.create(canvas3d_1.Canvas3DContext.fromCanvas(canvas));
-canvas3d.animate();
-var info = document.createElement('div');
-info.style.position = 'absolute';
-info.style.fontFamily = 'sans-serif';
-info.style.fontSize = '16pt';
-info.style.bottom = '20px';
-info.style.right = '20px';
-info.style.color = 'white';
-parent.appendChild(info);
-var prevReprLoci = representation_1.Representation.Loci.Empty;
-canvas3d.input.move.pipe((0, operators_1.throttleTime)(100)).subscribe(function (_a) {
-    var _b;
-    var x = _a.x, y = _a.y;
-    var pickingId = (_b = canvas3d.identify(x, y)) === null || _b === void 0 ? void 0 : _b.id;
-    var label = '';
-    if (pickingId) {
-        var reprLoci = canvas3d.getLoci(pickingId);
-        label = (0, label_1.lociLabel)(reprLoci.loci);
-        if (!representation_1.Representation.Loci.areEqual(prevReprLoci, reprLoci)) {
-            canvas3d.mark(prevReprLoci, marker_action_1.MarkerAction.RemoveHighlight);
-            canvas3d.mark(reprLoci, marker_action_1.MarkerAction.Highlight);
-            prevReprLoci = reprLoci;
-        }
-    }
-    else {
-        canvas3d.mark({ loci: loci_1.EveryLoci }, marker_action_1.MarkerAction.RemoveHighlight);
-        prevReprLoci = representation_1.Representation.Loci.Empty;
-    }
-    info.innerHTML = label;
-});
-function parseCif(data) {
-    return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
-        var comp, parsed;
-        return (0, tslib_1.__generator)(this, function (_a) {
-            switch (_a.label) {
-                case 0:
-                    comp = cif_1.CIF.parse(data);
-                    return [4 /*yield*/, comp.run()];
-                case 1:
-                    parsed = _a.sent();
-                    if (parsed.isError)
-                        throw parsed;
-                    return [2 /*return*/, parsed.result];
-            }
-        });
-    });
-}
-function downloadCif(url, isBinary) {
-    return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
-        var data, _a, _b, _c;
-        return (0, tslib_1.__generator)(this, function (_d) {
-            switch (_d.label) {
-                case 0: return [4 /*yield*/, fetch(url)];
-                case 1:
-                    data = _d.sent();
-                    _a = parseCif;
-                    if (!isBinary) return [3 /*break*/, 3];
-                    _c = Uint8Array.bind;
-                    return [4 /*yield*/, data.arrayBuffer()];
-                case 2:
-                    _b = new (_c.apply(Uint8Array, [void 0, _d.sent()]))();
-                    return [3 /*break*/, 5];
-                case 3: return [4 /*yield*/, data.text()];
-                case 4:
-                    _b = _d.sent();
-                    _d.label = 5;
-                case 5: return [2 /*return*/, _a.apply(void 0, [_b])];
-            }
-        });
-    });
-}
-function downloadFromPdb(pdb) {
-    return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
-        var parsed;
-        return (0, tslib_1.__generator)(this, function (_a) {
-            switch (_a.label) {
-                case 0: return [4 /*yield*/, downloadCif("https://models.rcsb.org/".concat(pdb, ".bcif"), true)];
-                case 1:
-                    parsed = _a.sent();
-                    return [2 /*return*/, parsed.blocks[0]];
-            }
-        });
-    });
-}
-function getModels(frame) {
-    return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
-        return (0, tslib_1.__generator)(this, function (_a) {
-            switch (_a.label) {
-                case 0: return [4 /*yield*/, (0, mmcif_1.trajectoryFromMmCIF)(frame).run()];
-                case 1: return [2 /*return*/, _a.sent()];
-            }
-        });
-    });
-}
-function getStructure(model) {
-    return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
-        return (0, tslib_1.__generator)(this, function (_a) {
-            return [2 /*return*/, structure_1.Structure.ofModel(model)];
-        });
-    });
-}
-var reprCtx = {
-    webgl: canvas3d.webgl,
-    colorThemeRegistry: color_1.ColorTheme.createRegistry(),
-    sizeThemeRegistry: size_1.SizeTheme.createRegistry()
-};
-function getCartoonRepr() {
-    return cartoon_1.CartoonRepresentationProvider.factory(reprCtx, cartoon_1.CartoonRepresentationProvider.getParams);
-}
-function getInteractionRepr() {
-    return interactions_1.InteractionsRepresentationProvider.factory(reprCtx, interactions_1.InteractionsRepresentationProvider.getParams);
-}
-function getBallAndStickRepr() {
-    return ball_and_stick_1.BallAndStickRepresentationProvider.factory(reprCtx, ball_and_stick_1.BallAndStickRepresentationProvider.getParams);
-}
-function getMolecularSurfaceRepr() {
-    return molecular_surface_1.MolecularSurfaceRepresentationProvider.factory(reprCtx, molecular_surface_1.MolecularSurfaceRepresentationProvider.getParams);
-}
-function getGaussianSurfaceRepr() {
-    return gaussian_surface_1.GaussianSurfaceRepresentationProvider.factory(reprCtx, gaussian_surface_1.GaussianSurfaceRepresentationProvider.getParams);
-}
-function getMembraneOrientationRepr() {
-    return representation_2.MembraneOrientationRepresentationProvider.factory(reprCtx, representation_2.MembraneOrientationRepresentationProvider.getParams);
-}
-function init() {
-    return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
-        var ctx, cif, models, structure, show, cartoonRepr, interactionRepr, ballAndStickRepr, molecularSurfaceRepr, gaussianSurfaceRepr, membraneOrientationRepr;
-        return (0, tslib_1.__generator)(this, function (_a) {
-            switch (_a.label) {
-                case 0:
-                    ctx = { runtime: synchronous_1.SyncRuntimeContext, assetManager: new assets_1.AssetManager() };
-                    return [4 /*yield*/, downloadFromPdb('3pqr')];
-                case 1:
-                    cif = _a.sent();
-                    return [4 /*yield*/, getModels(cif)];
-                case 2:
-                    models = _a.sent();
-                    return [4 /*yield*/, getStructure(models.representative)];
-                case 3:
-                    structure = _a.sent();
-                    console.time('compute SecondaryStructure');
-                    return [4 /*yield*/, secondary_structure_1.SecondaryStructureProvider.attach(ctx, structure)];
-                case 4:
-                    _a.sent();
-                    console.timeEnd('compute SecondaryStructure');
-                    console.time('compute Membrane Orientation');
-                    return [4 /*yield*/, prop_1.MembraneOrientationProvider.attach(ctx, structure)];
-                case 5:
-                    _a.sent();
-                    console.timeEnd('compute Membrane Orientation');
-                    console.time('compute Interactions');
-                    return [4 /*yield*/, interactions_2.InteractionsProvider.attach(ctx, structure)];
-                case 6:
-                    _a.sent();
-                    console.timeEnd('compute Interactions');
-                    console.log(interactions_2.InteractionsProvider.get(structure).value);
-                    show = {
-                        cartoon: true,
-                        interaction: true,
-                        ballAndStick: true,
-                        molecularSurface: false,
-                        gaussianSurface: false,
-                        membrane: true
-                    };
-                    cartoonRepr = getCartoonRepr();
-                    interactionRepr = getInteractionRepr();
-                    ballAndStickRepr = getBallAndStickRepr();
-                    molecularSurfaceRepr = getMolecularSurfaceRepr();
-                    gaussianSurfaceRepr = getGaussianSurfaceRepr();
-                    membraneOrientationRepr = getMembraneOrientationRepr();
-                    if (!show.cartoon) return [3 /*break*/, 8];
-                    cartoonRepr.setTheme({
-                        color: reprCtx.colorThemeRegistry.create('element-symbol', { structure: structure }),
-                        size: reprCtx.sizeThemeRegistry.create('uniform', { structure: structure })
-                    });
-                    return [4 /*yield*/, cartoonRepr.createOrUpdate((0, tslib_1.__assign)((0, tslib_1.__assign)({}, cartoon_1.CartoonRepresentationProvider.defaultValues), { quality: 'auto' }), structure).run()];
-                case 7:
-                    _a.sent();
-                    _a.label = 8;
-                case 8:
-                    if (!show.interaction) return [3 /*break*/, 10];
-                    interactionRepr.setTheme({
-                        color: reprCtx.colorThemeRegistry.create('interaction-type', { structure: structure }),
-                        size: reprCtx.sizeThemeRegistry.create('uniform', { structure: structure })
-                    });
-                    return [4 /*yield*/, interactionRepr.createOrUpdate((0, tslib_1.__assign)((0, tslib_1.__assign)({}, interactions_1.InteractionsRepresentationProvider.defaultValues), { quality: 'auto' }), structure).run()];
-                case 9:
-                    _a.sent();
-                    _a.label = 10;
-                case 10:
-                    if (!show.ballAndStick) return [3 /*break*/, 12];
-                    ballAndStickRepr.setTheme({
-                        color: reprCtx.colorThemeRegistry.create('element-symbol', { structure: structure }),
-                        size: reprCtx.sizeThemeRegistry.create('uniform', { structure: structure }, { value: 1 })
-                    });
-                    return [4 /*yield*/, ballAndStickRepr.createOrUpdate((0, tslib_1.__assign)((0, tslib_1.__assign)({}, ball_and_stick_1.BallAndStickRepresentationProvider.defaultValues), { quality: 'auto' }), structure).run()];
-                case 11:
-                    _a.sent();
-                    _a.label = 12;
-                case 12:
-                    if (!show.molecularSurface) return [3 /*break*/, 14];
-                    molecularSurfaceRepr.setTheme({
-                        color: reprCtx.colorThemeRegistry.create('secondary-structure', { structure: structure }),
-                        size: reprCtx.sizeThemeRegistry.create('physical', { structure: structure })
-                    });
-                    console.time('molecular surface');
-                    return [4 /*yield*/, molecularSurfaceRepr.createOrUpdate((0, tslib_1.__assign)((0, tslib_1.__assign)({}, molecular_surface_1.MolecularSurfaceRepresentationProvider.defaultValues), { quality: 'custom', alpha: 0.5, flatShaded: true, doubleSided: true, resolution: 0.3 }), structure).run()];
-                case 13:
-                    _a.sent();
-                    console.timeEnd('molecular surface');
-                    _a.label = 14;
-                case 14:
-                    if (!show.gaussianSurface) return [3 /*break*/, 16];
-                    gaussianSurfaceRepr.setTheme({
-                        color: reprCtx.colorThemeRegistry.create('secondary-structure', { structure: structure }),
-                        size: reprCtx.sizeThemeRegistry.create('physical', { structure: structure })
-                    });
-                    console.time('gaussian surface');
-                    return [4 /*yield*/, gaussianSurfaceRepr.createOrUpdate((0, tslib_1.__assign)((0, tslib_1.__assign)({}, gaussian_surface_1.GaussianSurfaceRepresentationProvider.defaultValues), { quality: 'custom', alpha: 1.0, flatShaded: true, doubleSided: true, resolution: 0.3 }), structure).run()];
-                case 15:
-                    _a.sent();
-                    console.timeEnd('gaussian surface');
-                    _a.label = 16;
-                case 16:
-                    if (!show.membrane) return [3 /*break*/, 18];
-                    return [4 /*yield*/, membraneOrientationRepr.createOrUpdate((0, tslib_1.__assign)((0, tslib_1.__assign)({}, representation_2.MembraneOrientationRepresentationProvider.defaultValues), { quality: 'auto' }), structure).run()];
-                case 17:
-                    _a.sent();
-                    _a.label = 18;
-                case 18:
-                    if (show.cartoon)
-                        canvas3d.add(cartoonRepr);
-                    if (show.interaction)
-                        canvas3d.add(interactionRepr);
-                    if (show.ballAndStick)
-                        canvas3d.add(ballAndStickRepr);
-                    if (show.molecularSurface)
-                        canvas3d.add(molecularSurfaceRepr);
-                    if (show.gaussianSurface)
-                        canvas3d.add(gaussianSurfaceRepr);
-                    if (show.membrane)
-                        canvas3d.add(membraneOrientationRepr);
-                    canvas3d.requestCameraReset();
-                    return [2 /*return*/];
-            }
-        });
-    });
-}
-init();
-//# sourceMappingURL=render-structure.js.map

package/lib/commonjs/tests/browser/render-structure.js.map

@@ -1 +0,0 @@
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package/lib/commonjs/tests/browser/render-text.d.ts

@@ -1,6 +0,0 @@
-/**
- * Copyright (c) 2019 mol* contributors, licensed under MIT, See LICENSE file for more info.
- *
- * @author Alexander Rose <alexander.rose@weirdbyte.de>
- */
-import './index.html';

package/lib/commonjs/tests/browser/render-text.js

@@ -1,61 +0,0 @@
-"use strict";
-/**
- * Copyright (c) 2019 mol* contributors, licensed under MIT, See LICENSE file for more info.
- *
- * @author Alexander Rose <alexander.rose@weirdbyte.de>
- */
-Object.defineProperty(exports, "__esModule", { value: true });
-var tslib_1 = require("tslib");
-require("./index.html");
-var canvas3d_1 = require("../../mol-canvas3d/canvas3d");
-var text_builder_1 = require("../../mol-geo/geometry/text/text-builder");
-var text_1 = require("../../mol-geo/geometry/text/text");
-var param_definition_1 = require("../../mol-util/param-definition");
-var color_1 = require("../../mol-util/color");
-var representation_1 = require("../../mol-repr/representation");
-var spheres_builder_1 = require("../../mol-geo/geometry/spheres/spheres-builder");
-var render_object_1 = require("../../mol-gl/render-object");
-var spheres_1 = require("../../mol-geo/geometry/spheres/spheres");
-var util_1 = require("../../mol-canvas3d/util");
-var parent = document.getElementById('app');
-parent.style.width = '100%';
-parent.style.height = '100%';
-var canvas = document.createElement('canvas');
-parent.appendChild(canvas);
-(0, util_1.resizeCanvas)(canvas, parent);
-var canvas3d = canvas3d_1.Canvas3D.create(canvas3d_1.Canvas3DContext.fromCanvas(canvas));
-canvas3d.animate();
-function textRepr() {
-    var props = (0, tslib_1.__assign)((0, tslib_1.__assign)({}, param_definition_1.ParamDefinition.getDefaultValues(text_1.Text.Params)), { attachment: 'top-right', fontQuality: 3, fontWeight: 'normal', borderWidth: 0.3, background: true, backgroundOpacity: 0.5, tether: true, tetherLength: 1.5, tetherBaseWidth: 0.5 });
-    var textBuilder = text_builder_1.TextBuilder.create(props, 1, 1);
-    textBuilder.add('Hello world', 0, 0, 0, 1, 1, 0);
-    // textBuilder.add('Добрый день', 0, 1, 0, 0, 0)
-    // textBuilder.add('美好的一天', 0, 2, 0, 0, 0)
-    // textBuilder.add('¿Cómo estás?', 0, -1, 0, 0, 0)
-    // textBuilder.add('αβγ Å', 0, -2, 0, 0, 0)
-    var text = textBuilder.getText();
-    var values = text_1.Text.Utils.createValuesSimple(text, props, (0, color_1.Color)(0xFFDD00), 1);
-    var state = text_1.Text.Utils.createRenderableState(props);
-    var renderObject = (0, render_object_1.createRenderObject)('text', values, state, -1);
-    console.log('text', renderObject, props);
-    var repr = representation_1.Representation.fromRenderObject('text', renderObject);
-    return repr;
-}
-function spheresRepr() {
-    var spheresBuilder = spheres_builder_1.SpheresBuilder.create(1, 1);
-    spheresBuilder.add(0, 0, 0, 0);
-    spheresBuilder.add(5, 0, 0, 0);
-    spheresBuilder.add(-4, 1, 0, 0);
-    var spheres = spheresBuilder.getSpheres();
-    var props = param_definition_1.ParamDefinition.getDefaultValues(spheres_1.Spheres.Utils.Params);
-    var values = spheres_1.Spheres.Utils.createValuesSimple(spheres, props, (0, color_1.Color)(0xFF0000), 0.2);
-    var state = spheres_1.Spheres.Utils.createRenderableState(props);
-    var renderObject = (0, render_object_1.createRenderObject)('spheres', values, state, -1);
-    console.log('spheres', renderObject);
-    var repr = representation_1.Representation.fromRenderObject('spheres', renderObject);
-    return repr;
-}
-canvas3d.add(textRepr());
-canvas3d.add(spheresRepr());
-canvas3d.requestCameraReset();
-//# sourceMappingURL=render-text.js.map

package/lib/commonjs/tests/browser/render-text.js.map

@@ -1 +0,0 @@
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