molstar 2.3.9 → 3.0.0-dev.2

package/lib/mol-theme/substance.js

@@ -0,0 +1,137 @@
+/**
+ * Copyright (c) 2021 mol* contributors, licensed under MIT, See LICENSE file for more info.
+ *
+ * @author Alexander Rose <alexander.rose@weirdbyte.de>
+ */
+import { Loci } from '../mol-model/loci';
+import { StructureElement } from '../mol-model/structure';
+import { Script } from '../mol-script/script';
+import { Material } from '../mol-util/material';
+import { shallowEqual } from '../mol-util/object';
+export { Substance };
+function Substance(layers) {
+    return { layers: layers };
+}
+(function (Substance) {
+    Substance.Empty = { layers: [] };
+    function areEqual(sA, sB) {
+        if (sA.layers.length === 0 && sB.layers.length === 0)
+            return true;
+        if (sA.layers.length !== sB.layers.length)
+            return false;
+        for (var i = 0, il = sA.layers.length; i < il; ++i) {
+            if (sA.layers[i].clear !== sB.layers[i].clear)
+                return false;
+            if (!shallowEqual(sA.layers[i].material, sB.layers[i].material))
+                return false;
+            if (!Loci.areEqual(sA.layers[i].loci, sB.layers[i].loci))
+                return false;
+        }
+        return true;
+    }
+    Substance.areEqual = areEqual;
+    function isEmpty(overpaint) {
+        return overpaint.layers.length === 0;
+    }
+    Substance.isEmpty = isEmpty;
+    function remap(substance, structure) {
+        var layers = [];
+        for (var _i = 0, _a = substance.layers; _i < _a.length; _i++) {
+            var layer = _a[_i];
+            var loci = layer.loci, material = layer.material, clear = layer.clear;
+            loci = StructureElement.Loci.remap(loci, structure);
+            if (!StructureElement.Loci.isEmpty(loci)) {
+                layers.push({ loci: loci, material: material, clear: clear });
+            }
+        }
+        return { layers: layers };
+    }
+    Substance.remap = remap;
+    function merge(substance) {
+        if (isEmpty(substance))
+            return substance;
+        var structure = substance.layers[0].loci.structure;
+        var clearLoci = void 0;
+        var map = new Map();
+        var shadowed = StructureElement.Loci.none(structure);
+        for (var i = 0, il = substance.layers.length; i < il; ++i) {
+            var _a = substance.layers[il - i - 1], loci = _a.loci, material = _a.material, clear = _a.clear; // process from end
+            loci = StructureElement.Loci.subtract(loci, shadowed);
+            shadowed = StructureElement.Loci.union(loci, shadowed);
+            if (!StructureElement.Loci.isEmpty(loci)) {
+                if (clear) {
+                    clearLoci = clearLoci
+                        ? StructureElement.Loci.union(loci, clearLoci)
+                        : loci;
+                }
+                else {
+                    if (map.has(material)) {
+                        loci = StructureElement.Loci.union(loci, map.get(material));
+                    }
+                    map.set(material, loci);
+                }
+            }
+        }
+        var layers = [];
+        if (clearLoci) {
+            layers.push({ loci: clearLoci, material: Material(), clear: true });
+        }
+        map.forEach(function (loci, material) {
+            layers.push({ loci: loci, material: material, clear: false });
+        });
+        return { layers: layers };
+    }
+    Substance.merge = merge;
+    function filter(substance, filter) {
+        if (isEmpty(substance))
+            return substance;
+        var structure = substance.layers[0].loci.structure;
+        var layers = [];
+        for (var _i = 0, _a = substance.layers; _i < _a.length; _i++) {
+            var layer = _a[_i];
+            var loci = layer.loci, material = layer.material, clear = layer.clear;
+            // filter by first map to the `filter` structure and
+            // then map back to the original structure of the substance loci
+            var filtered = StructureElement.Loci.remap(loci, filter);
+            loci = StructureElement.Loci.remap(filtered, structure);
+            if (!StructureElement.Loci.isEmpty(loci)) {
+                layers.push({ loci: loci, material: material, clear: clear });
+            }
+        }
+        return { layers: layers };
+    }
+    Substance.filter = filter;
+    function ofScript(scriptLayers, structure) {
+        var layers = [];
+        for (var i = 0, il = scriptLayers.length; i < il; ++i) {
+            var _a = scriptLayers[i], script = _a.script, material = _a.material, clear = _a.clear;
+            var loci = Script.toLoci(script, structure);
+            if (!StructureElement.Loci.isEmpty(loci)) {
+                layers.push({ loci: loci, material: material, clear: clear });
+            }
+        }
+        return { layers: layers };
+    }
+    Substance.ofScript = ofScript;
+    function ofBundle(bundleLayers, structure) {
+        var layers = [];
+        for (var i = 0, il = bundleLayers.length; i < il; ++i) {
+            var _a = bundleLayers[i], bundle = _a.bundle, material = _a.material, clear = _a.clear;
+            var loci = StructureElement.Bundle.toLoci(bundle, structure.root);
+            layers.push({ loci: loci, material: material, clear: clear });
+        }
+        return { layers: layers };
+    }
+    Substance.ofBundle = ofBundle;
+    function toBundle(overpaint) {
+        var layers = [];
+        for (var i = 0, il = overpaint.layers.length; i < il; ++i) {
+            var _a = overpaint.layers[i], loci = _a.loci, material = _a.material, clear = _a.clear;
+            var bundle = StructureElement.Bundle.fromLoci(loci);
+            layers.push({ bundle: bundle, material: material, clear: clear });
+        }
+        return { layers: layers };
+    }
+    Substance.toBundle = toBundle;
+})(Substance || (Substance = {}));
+//# sourceMappingURL=substance.js.map

package/lib/mol-util/color/names.d.ts

@@ -164,4 +164,4 @@ export declare const ColorNames: ColorMap<{
 }>;
 export declare type ColorNames = typeof ColorNames;
 export declare type ColorName = keyof ColorNames;
-export declare const ColorNamesValueMap: Map<Color, "aliceblue" | "antiquewhite" | "aqua" | "aquamarine" | "azure" | "beige" | "bisque" | "black" | "blanchedalmond" | "blue" | "blueviolet" | "brown" | "burlywood" | "cadetblue" | "chartreuse" | "chocolate" | "coral" | "cornflower" | "cornflowerblue" | "cornsilk" | "crimson" | "cyan" | "darkblue" | "darkcyan" | "darkgoldenrod" | "darkgray" | "darkgreen" | "darkgrey" | "darkkhaki" | "darkmagenta" | "darkolivegreen" | "darkorange" | "darkorchid" | "darkred" | "darksalmon" | "darkseagreen" | "darkslateblue" | "darkslategray" | "darkslategrey" | "darkturquoise" | "darkviolet" | "deeppink" | "deepskyblue" | "dimgray" | "dimgrey" | "dodgerblue" | "firebrick" | "floralwhite" | "forestgreen" | "fuchsia" | "gainsboro" | "ghostwhite" | "gold" | "goldenrod" | "gray" | "green" | "greenyellow" | "grey" | "honeydew" | "hotpink" | "indianred" | "indigo" | "ivory" | "khaki" | "laserlemon" | "lavender" | "lavenderblush" | "lawngreen" | "lemonchiffon" | "lightblue" | "lightcoral" | "lightcyan" | "lightgoldenrod" | "lightgoldenrodyellow" | "lightgray" | "lightgreen" | "lightgrey" | "lightpink" | "lightsalmon" | "lightseagreen" | "lightskyblue" | "lightslategray" | "lightslategrey" | "lightsteelblue" | "lightyellow" | "lime" | "limegreen" | "linen" | "magenta" | "maroon" | "maroon2" | "maroon3" | "mediumaquamarine" | "mediumblue" | "mediumorchid" | "mediumpurple" | "mediumseagreen" | "mediumslateblue" | "mediumspringgreen" | "mediumturquoise" | "mediumvioletred" | "midnightblue" | "mintcream" | "mistyrose" | "moccasin" | "navajowhite" | "navy" | "oldlace" | "olive" | "olivedrab" | "orange" | "orangered" | "orchid" | "palegoldenrod" | "palegreen" | "paleturquoise" | "palevioletred" | "papayawhip" | "peachpuff" | "peru" | "pink" | "plum" | "powderblue" | "purple" | "purple2" | "purple3" | "rebeccapurple" | "red" | "rosybrown" | "royalblue" | "saddlebrown" | "salmon" | "sandybrown" | "seagreen" | "seashell" | "sienna" | "silver" | "skyblue" | "slateblue" | "slategray" | "slategrey" | "snow" | "springgreen" | "steelblue" | "tan" | "teal" | "thistle" | "tomato" | "turquoise" | "violet" | "wheat" | "white" | "whitesmoke" | "yellow" | "yellowgreen">;
+export declare const ColorNamesValueMap: Map<Color, "aliceblue" | "antiquewhite" | "aqua" | "aquamarine" | "azure" | "beige" | "bisque" | "black" | "blanchedalmond" | "blue" | "blueviolet" | "brown" | "burlywood" | "cadetblue" | "chartreuse" | "chocolate" | "coral" | "cornflowerblue" | "cornsilk" | "crimson" | "cyan" | "darkblue" | "darkcyan" | "darkgoldenrod" | "darkgray" | "darkgreen" | "darkgrey" | "darkkhaki" | "darkmagenta" | "darkolivegreen" | "darkorange" | "darkorchid" | "darkred" | "darksalmon" | "darkseagreen" | "darkslateblue" | "darkslategray" | "darkslategrey" | "darkturquoise" | "darkviolet" | "deeppink" | "deepskyblue" | "dimgray" | "dimgrey" | "dodgerblue" | "firebrick" | "floralwhite" | "forestgreen" | "fuchsia" | "gainsboro" | "ghostwhite" | "gold" | "goldenrod" | "gray" | "green" | "greenyellow" | "grey" | "honeydew" | "hotpink" | "indianred" | "indigo" | "ivory" | "khaki" | "lavender" | "lavenderblush" | "lawngreen" | "lemonchiffon" | "lightblue" | "lightcoral" | "lightcyan" | "lightgoldenrodyellow" | "lightgray" | "lightgreen" | "lightgrey" | "lightpink" | "lightsalmon" | "lightseagreen" | "lightskyblue" | "lightslategray" | "lightslategrey" | "lightsteelblue" | "lightyellow" | "lime" | "limegreen" | "linen" | "magenta" | "maroon" | "mediumaquamarine" | "mediumblue" | "mediumorchid" | "mediumpurple" | "mediumseagreen" | "mediumslateblue" | "mediumspringgreen" | "mediumturquoise" | "mediumvioletred" | "midnightblue" | "mintcream" | "mistyrose" | "moccasin" | "navajowhite" | "navy" | "oldlace" | "olive" | "olivedrab" | "orange" | "orangered" | "orchid" | "palegoldenrod" | "palegreen" | "paleturquoise" | "palevioletred" | "papayawhip" | "peachpuff" | "peru" | "pink" | "plum" | "powderblue" | "purple" | "rebeccapurple" | "red" | "rosybrown" | "royalblue" | "saddlebrown" | "salmon" | "sandybrown" | "seagreen" | "seashell" | "sienna" | "silver" | "skyblue" | "slateblue" | "slategray" | "slategrey" | "snow" | "springgreen" | "steelblue" | "tan" | "teal" | "thistle" | "tomato" | "turquoise" | "violet" | "wheat" | "white" | "whitesmoke" | "yellow" | "yellowgreen" | "cornflower" | "laserlemon" | "lightgoldenrod" | "maroon2" | "maroon3" | "purple2" | "purple3">;

package/lib/mol-util/material.d.ts

@@ -0,0 +1,29 @@
+/**
+ * Copyright (c) 2021 mol* contributors, licensed under MIT, See LICENSE file for more info.
+ *
+ * @author Alexander Rose <alexander.rose@weirdbyte.de>
+ */
+import { NumberArray } from './type-helpers';
+import { ParamDefinition as PD } from './param-definition';
+export interface Material {
+    /** Normalized to [0, 1] range */
+    metalness: number;
+    /** Normalized to [0, 1] range */
+    roughness: number;
+}
+export declare function Material(values?: Partial<Material>): {
+    metalness: number;
+    roughness: number;
+};
+export declare namespace Material {
+    const Zero: Material;
+    function toArray(material: Material, array: NumberArray, offset: number): NumberArray;
+    function toString({ metalness, roughness }: Material): string;
+    function getParam(info?: {
+        isExpanded?: boolean;
+        isFlat?: boolean;
+    }): PD.Group<PD.Normalize<{
+        metalness: number;
+        roughness: number;
+    }>>;
+}

package/lib/mol-util/material.js

@@ -0,0 +1,37 @@
+/**
+ * Copyright (c) 2021 mol* contributors, licensed under MIT, See LICENSE file for more info.
+ *
+ * @author Alexander Rose <alexander.rose@weirdbyte.de>
+ */
+import { __assign } from "tslib";
+import { ParamDefinition as PD } from './param-definition';
+export function Material(values) {
+    return __assign(__assign({}, Material.Zero), values);
+}
+(function (Material) {
+    Material.Zero = { metalness: 0, roughness: 0 };
+    function toArray(material, array, offset) {
+        array[offset] = material.metalness * 255;
+        array[offset + 1] = material.roughness * 255;
+        return array;
+    }
+    Material.toArray = toArray;
+    function toString(_a) {
+        var metalness = _a.metalness, roughness = _a.roughness;
+        return "M ".concat(metalness.toFixed(2), " | R ").concat(roughness.toFixed(2));
+    }
+    Material.toString = toString;
+    function getParam(info) {
+        return PD.Group({
+            metalness: PD.Numeric(0, { min: 0, max: 1, step: 0.01 }),
+            roughness: PD.Numeric(1, { min: 0, max: 1, step: 0.01 }),
+        }, __assign(__assign({}, info), { presets: [
+                [{ metalness: 0, roughness: 1 }, 'Matte'],
+                [{ metalness: 0, roughness: 0.2 }, 'Plastic'],
+                [{ metalness: 0, roughness: 0.6 }, 'Glossy'],
+                [{ metalness: 1.0, roughness: 0.6 }, 'Metallic'],
+            ] }));
+    }
+    Material.getParam = getParam;
+})(Material || (Material = {}));
+//# sourceMappingURL=material.js.map

package/lib/mol-util/number.d.ts

@@ -23,3 +23,4 @@ export declare function getArrayDigitCount(xs: ArrayLike<number>, maxDigits: num
 export declare function isInteger(s: string): boolean;
 export declare function getPrecision(v: number): number;
 export declare function toPrecision(v: number, precision: number): number;
+export declare function toFixed(v: number, fractionDigits: number): number;

package/lib/mol-util/number.js

@@ -69,4 +69,7 @@ export function getPrecision(v) {
 export function toPrecision(v, precision) {
     return parseFloat(v.toPrecision(precision));
 }
+export function toFixed(v, fractionDigits) {
+    return parseFloat(v.toFixed(fractionDigits));
+}
 //# sourceMappingURL=number.js.map

package/lib/mol-util/param-definition.d.ts

@@ -165,6 +165,7 @@ export declare namespace ParamDefinition {
     export interface Group<T> extends Base<T> {
         type: 'group';
         params: Params;
+        presets?: Select<T>['options'];
         isExpanded?: boolean;
         isFlat?: boolean;
         pivot?: keyof T;
@@ -174,6 +175,7 @@ export declare namespace ParamDefinition {
         isFlat?: boolean;
         customDefault?: any;
         pivot?: keyof T;
+        presets?: Select<T>['options'];
     }): Group<Normalize<T>>;
     export function EmptyGroup(info?: Info): Group<Normalize<unknown>>;
     export interface NamedParams<T = any, K = string> {

package/lib/mol-util/param-definition.js

@@ -147,6 +147,8 @@ export var ParamDefinition;
     ParamDefinition.LineGraph = LineGraph;
     function Group(params, info) {
         var ret = setInfo({ type: 'group', defaultValue: (info === null || info === void 0 ? void 0 : info.customDefault) || getDefaultValues(params), params: params }, info);
+        if (info === null || info === void 0 ? void 0 : info.presets)
+            ret.presets = info.presets;
         if (info === null || info === void 0 ? void 0 : info.isExpanded)
             ret.isExpanded = info.isExpanded;
         if (info === null || info === void 0 ? void 0 : info.isFlat)

package/lib/servers/model/config.d.ts

@@ -53,7 +53,7 @@ declare const DefaultModelServerConfig: {
      *
      * /static query uses 'pdb-cif' and 'pdb-bcif' source names.
      */
-    sourceMap: ([string, string] | [string, string, "cif" | "bcif" | "cif.gz" | "bcif.gz"])[];
+    sourceMap: ([string, string] | [string, string, "bcif" | "cif" | "cif.gz" | "bcif.gz"])[];
 };
 export declare const ModelServerFetchFormats: readonly ["cif", "bcif", "cif.gz", "bcif.gz"];
 export declare type ModelServerFetchFormats = (typeof ModelServerFetchFormats)[number];
@@ -108,7 +108,7 @@ export declare const ModelServerConfig: {
      *
      * /static query uses 'pdb-cif' and 'pdb-bcif' source names.
      */
-    sourceMap: ([string, string] | [string, string, "cif" | "bcif" | "cif.gz" | "bcif.gz"])[];
+    sourceMap: ([string, string] | [string, string, "bcif" | "cif" | "cif.gz" | "bcif.gz"])[];
 };
 export declare const ModelServerConfigTemplate: ModelServerConfig;
 export declare function configureServer(): void;

package/package.json

@@ -1,158 +1,160 @@
-{
-  "name": "molstar",
-  "version": "2.3.9",
-  "description": "A comprehensive macromolecular library.",
-  "homepage": "https://github.com/molstar/molstar#readme",
-  "repository": {
-    "type": "git",
-    "url": "https://github.com/molstar/molstar.git"
-  },
-  "bugs": {
-    "url": "https://github.com/molstar/molstar/issues"
-  },
-  "scripts": {
-    "lint": "eslint .",
-    "lint-fix": "eslint . --fix",
-    "test": "npm run lint && jest",
-    "jest": "jest",
-    "build": "npm run build-tsc && npm run build-extra && npm run build-webpack",
-    "build-viewer": "npm run build-tsc && npm run build-extra && npm run build-webpack-viewer",
-    "build-tsc": "concurrently \"tsc --incremental\" \"tsc --build tsconfig.commonjs.json --incremental\"",
-    "build-extra": "cpx \"src/**/*.{scss,html,ico}\" lib/",
-    "build-webpack": "webpack --mode production --config ./webpack.config.production.js",
-    "build-webpack-viewer": "webpack --mode production --config ./webpack.config.viewer.js",
-    "watch": "concurrently -c \"green,green,gray,gray\" --names \"tsc,srv,ext,wpc\" --kill-others \"npm:watch-tsc\" \"npm:watch-servers\" \"npm:watch-extra\" \"npm:watch-webpack\"",
-    "watch-viewer": "concurrently -c \"green,gray,gray\" --names \"tsc,ext,wpc\" --kill-others \"npm:watch-tsc\" \"npm:watch-extra\" \"npm:watch-webpack-viewer\"",
-    "watch-viewer-debug": "concurrently -c \"green,gray,gray\" --names \"tsc,ext,wpc\" --kill-others \"npm:watch-tsc\" \"npm:watch-extra\" \"npm:watch-webpack-viewer-debug\"",
-    "watch-tsc": "tsc --watch --incremental",
-    "watch-servers": "tsc --build tsconfig.commonjs.json --watch --incremental",
-    "watch-extra": "cpx \"src/**/*.{scss,html,ico}\" lib/ --watch",
-    "watch-webpack": "webpack -w --mode development --stats minimal",
-    "watch-webpack-viewer": "webpack -w --mode development --stats minimal --config ./webpack.config.viewer.js",
-    "watch-webpack-viewer-debug": "webpack -w --mode development --stats minimal --config ./webpack.config.viewer.debug.js",
-    "serve": "http-server -p 1338 -g",
-    "model-server": "node lib/commonjs/servers/model/server.js",
-    "model-server-watch": "nodemon --watch lib lib/commonjs/servers/model/server.js",
-    "volume-server-test": "node lib/commonjs/servers/volume/server.js --idMap em 'test/${id}.mdb' --defaultPort 1336",
-    "plugin-state": "node lib/commonjs/servers/plugin-state/index.js --working-folder ./build/state --port 1339",
-    "preversion": "npm run test",
-    "version": "npm run build",
-    "postversion": "git push && git push --tags"
-  },
-  "files": [
-    "lib/",
-    "build/viewer/"
-  ],
-  "bin": {
-    "cif2bcif": "lib/commonjs/cli/cif2bcif/index.js",
-    "cifschema": "lib/commonjs/cli/cifschema/index.js",
-    "model-server": "lib/commonjs/servers/model/server.js",
-    "model-server-query": "lib/commonjs/servers/model/query.js",
-    "model-server-preprocess": "lib/commonjs/servers/model/preprocess.js",
-    "volume-server": "lib/commonjs/servers/volume/server.js",
-    "volume-server-query": "lib/commonjs/servers/volume/query.js",
-    "volume-server-pack": "lib/commonjs/servers/volume/pack.js"
-  },
-  "nodemonConfig": {
-    "ignoreRoot": [
-      "./node_modules",
-      ".git"
-    ],
-    "ignore": [],
-    "delay": "2500"
-  },
-  "jest": {
-    "moduleFileExtensions": [
-      "ts",
-      "js"
-    ],
-    "transform": {
-      "\\.ts$": "ts-jest"
-    },
-    "moduleDirectories": [
-      "node_modules",
-      "lib"
-    ],
-    "testURL": "http://localhost/",
-    "testRegex": "\\.spec\\.ts$"
-  },
-  "author": "Mol* Contributors",
-  "contributors": [
-    "Alexander Rose <alexander.rose@weirdbyte.de>",
-    "David Sehnal <david.sehnal@gmail.com>",
-    "Sebastian Bittrich <sebastian.bittrich@rcsb.org>",
-    "Áron Samuel Kovács <aron.kovacs@mail.muni.cz>",
-    "Ludovic Autin <autin@scripps.edu>",
-    "Michal Malý <michal.maly@ibt.cas.cz>",
-    "Jiří Černý <jiri.cerny@ibt.cas.cz>"
-  ],
-  "license": "MIT",
-  "devDependencies": {
-    "@graphql-codegen/add": "^3.1.0",
-    "@graphql-codegen/cli": "^2.2.0",
-    "@graphql-codegen/time": "^3.1.0",
-    "@graphql-codegen/typescript": "^2.2.2",
-    "@graphql-codegen/typescript-graphql-files-modules": "^2.1.0",
-    "@graphql-codegen/typescript-graphql-request": "^4.1.4",
-    "@graphql-codegen/typescript-operations": "^2.1.6",
-    "@types/cors": "^2.8.12",
-    "@types/gl": "^4.1.0",
-    "@types/jest": "^27.0.2",
-    "@typescript-eslint/eslint-plugin": "^4.32.0",
-    "@typescript-eslint/parser": "^4.32.0",
-    "benchmark": "^2.1.4",
-    "concurrently": "^6.3.0",
-    "cpx2": "^4.0.0",
-    "crypto-browserify": "^3.12.0",
-    "css-loader": "^6.3.0",
-    "eslint": "^7.32.0",
-    "extra-watch-webpack-plugin": "^1.0.3",
-    "file-loader": "^6.2.0",
-    "fs-extra": "^10.0.0",
-    "graphql": "^15.6.0",
-    "http-server": "^13.0.2",
-    "jest": "^27.2.4",
-    "mini-css-extract-plugin": "^2.3.0",
-    "path-browserify": "^1.0.1",
-    "raw-loader": "^4.0.2",
-    "sass": "^1.43.4",
-    "sass-loader": "^12.3.0",
-    "simple-git": "^2.46.0",
-    "stream-browserify": "^3.0.0",
-    "style-loader": "^3.3.0",
-    "ts-jest": "^27.0.5",
-    "typescript": "^4.5.2",
-    "webpack": "^5.64.1",
-    "webpack-cli": "^4.9.1"
-  },
-  "dependencies": {
-    "@types/argparse": "^2.0.10",
-    "@types/benchmark": "^2.1.1",
-    "@types/compression": "1.7.2",
-    "@types/express": "^4.17.13",
-    "@types/node": "^16.10.2",
-    "@types/node-fetch": "^2.5.12",
-    "@types/react": "^17.0.27",
-    "@types/react-dom": "^17.0.9",
-    "@types/swagger-ui-dist": "3.30.1",
-    "argparse": "^2.0.1",
-    "body-parser": "^1.19.0",
-    "compression": "^1.7.4",
-    "cors": "^2.8.5",
-    "express": "^4.17.1",
-    "h264-mp4-encoder": "^1.0.12",
-    "immer": "^9.0.6",
-    "immutable": "^3.8.2",
-    "node-fetch": "^2.6.2",
-    "react": "^17.0.2",
-    "react-dom": "^17.0.2",
-    "rxjs": "^7.3.1",
-    "swagger-ui-dist": "^3.52.3",
-    "tslib": "^2.3.1",
-    "util.promisify": "^1.1.1",
-    "xhr2": "^0.2.1"
-  },
-  "optionalDependencies": {
-    "gl": "^4.9.2"
-  }
-}
+{
+  "name": "molstar",
+  "version": "3.0.0-dev.2",
+  "description": "A comprehensive macromolecular library.",
+  "homepage": "https://github.com/molstar/molstar#readme",
+  "repository": {
+    "type": "git",
+    "url": "https://github.com/molstar/molstar.git"
+  },
+  "bugs": {
+    "url": "https://github.com/molstar/molstar/issues"
+  },
+  "scripts": {
+    "lint": "eslint .",
+    "lint-fix": "eslint . --fix",
+    "test": "npm run lint && jest",
+    "jest": "jest",
+    "build": "npm run build-tsc && npm run build-extra && npm run build-webpack",
+    "clean": "node ./scripts/clean.js",
+    "rebuild": "npm run clean && npm run build",
+    "build-viewer": "npm run build-tsc && npm run build-extra && npm run build-webpack-viewer",
+    "build-tsc": "concurrently \"tsc --incremental\" \"tsc --build tsconfig.commonjs.json --incremental\"",
+    "build-extra": "cpx \"src/**/*.{scss,html,ico}\" lib/",
+    "build-webpack": "webpack --mode production --config ./webpack.config.production.js",
+    "build-webpack-viewer": "webpack --mode production --config ./webpack.config.viewer.js",
+    "watch": "concurrently -c \"green,green,gray,gray\" --names \"tsc,srv,ext,wpc\" --kill-others \"npm:watch-tsc\" \"npm:watch-servers\" \"npm:watch-extra\" \"npm:watch-webpack\"",
+    "watch-viewer": "concurrently -c \"green,gray,gray\" --names \"tsc,ext,wpc\" --kill-others \"npm:watch-tsc\" \"npm:watch-extra\" \"npm:watch-webpack-viewer\"",
+    "watch-viewer-debug": "concurrently -c \"green,gray,gray\" --names \"tsc,ext,wpc\" --kill-others \"npm:watch-tsc\" \"npm:watch-extra\" \"npm:watch-webpack-viewer-debug\"",
+    "watch-tsc": "tsc --watch --incremental",
+    "watch-servers": "tsc --build tsconfig.commonjs.json --watch --incremental",
+    "watch-extra": "cpx \"src/**/*.{scss,html,ico}\" lib/ --watch",
+    "watch-webpack": "webpack -w --mode development --stats minimal",
+    "watch-webpack-viewer": "webpack -w --mode development --stats minimal --config ./webpack.config.viewer.js",
+    "watch-webpack-viewer-debug": "webpack -w --mode development --stats minimal --config ./webpack.config.viewer.debug.js",
+    "serve": "http-server -p 1338 -g",
+    "model-server": "node lib/commonjs/servers/model/server.js",
+    "model-server-watch": "nodemon --watch lib lib/commonjs/servers/model/server.js",
+    "volume-server-test": "node lib/commonjs/servers/volume/server.js --idMap em 'test/${id}.mdb' --defaultPort 1336",
+    "plugin-state": "node lib/commonjs/servers/plugin-state/index.js --working-folder ./build/state --port 1339",
+    "preversion": "npm run test",
+    "version": "npm run rebuild && cpx .npmignore lib/",
+    "postversion": "git push && git push --tags"
+  },
+  "files": [
+    "lib/",
+    "build/viewer/"
+  ],
+  "bin": {
+    "cif2bcif": "lib/commonjs/cli/cif2bcif/index.js",
+    "cifschema": "lib/commonjs/cli/cifschema/index.js",
+    "model-server": "lib/commonjs/servers/model/server.js",
+    "model-server-query": "lib/commonjs/servers/model/query.js",
+    "model-server-preprocess": "lib/commonjs/servers/model/preprocess.js",
+    "volume-server": "lib/commonjs/servers/volume/server.js",
+    "volume-server-query": "lib/commonjs/servers/volume/query.js",
+    "volume-server-pack": "lib/commonjs/servers/volume/pack.js"
+  },
+  "nodemonConfig": {
+    "ignoreRoot": [
+      "./node_modules",
+      ".git"
+    ],
+    "ignore": [],
+    "delay": "2500"
+  },
+  "jest": {
+    "moduleFileExtensions": [
+      "ts",
+      "js"
+    ],
+    "transform": {
+      "\\.ts$": "ts-jest"
+    },
+    "moduleDirectories": [
+      "node_modules",
+      "lib"
+    ],
+    "testURL": "http://localhost/",
+    "testRegex": "\\.spec\\.ts$"
+  },
+  "author": "Mol* Contributors",
+  "contributors": [
+    "Alexander Rose <alexander.rose@weirdbyte.de>",
+    "David Sehnal <david.sehnal@gmail.com>",
+    "Sebastian Bittrich <sebastian.bittrich@rcsb.org>",
+    "Áron Samuel Kovács <aron.kovacs@mail.muni.cz>",
+    "Ludovic Autin <autin@scripps.edu>",
+    "Michal Malý <michal.maly@ibt.cas.cz>",
+    "Jiří Černý <jiri.cerny@ibt.cas.cz>"
+  ],
+  "license": "MIT",
+  "devDependencies": {
+    "@graphql-codegen/add": "^3.1.0",
+    "@graphql-codegen/cli": "^2.3.0",
+    "@graphql-codegen/time": "^3.1.0",
+    "@graphql-codegen/typescript": "^2.4.1",
+    "@graphql-codegen/typescript-graphql-files-modules": "^2.1.0",
+    "@graphql-codegen/typescript-graphql-request": "^4.3.1",
+    "@graphql-codegen/typescript-operations": "^2.2.1",
+    "@types/cors": "^2.8.12",
+    "@types/gl": "^4.1.0",
+    "@types/jest": "^27.0.3",
+    "@typescript-eslint/eslint-plugin": "^5.4.0",
+    "@typescript-eslint/parser": "^5.4.0",
+    "benchmark": "^2.1.4",
+    "concurrently": "^6.4.0",
+    "cpx2": "^4.0.0",
+    "crypto-browserify": "^3.12.0",
+    "css-loader": "^6.5.1",
+    "eslint": "^8.3.0",
+    "extra-watch-webpack-plugin": "^1.0.3",
+    "file-loader": "^6.2.0",
+    "fs-extra": "^10.0.0",
+    "graphql": "^15.7.2",
+    "http-server": "^14.0.0",
+    "jest": "^27.3.1",
+    "mini-css-extract-plugin": "^2.4.5",
+    "path-browserify": "^1.0.1",
+    "raw-loader": "^4.0.2",
+    "sass": "^1.43.5",
+    "sass-loader": "^12.3.0",
+    "simple-git": "^2.47.0",
+    "stream-browserify": "^3.0.0",
+    "style-loader": "^3.3.1",
+    "ts-jest": "^27.0.7",
+    "typescript": "^4.5.2",
+    "webpack": "^5.64.4",
+    "webpack-cli": "^4.9.1"
+  },
+  "dependencies": {
+    "@types/argparse": "^2.0.10",
+    "@types/benchmark": "^2.1.1",
+    "@types/compression": "1.7.2",
+    "@types/express": "^4.17.13",
+    "@types/node": "^16.11.10",
+    "@types/node-fetch": "^2.5.12",
+    "@types/react": "^17.0.37",
+    "@types/react-dom": "^17.0.11",
+    "@types/swagger-ui-dist": "3.30.1",
+    "argparse": "^2.0.1",
+    "body-parser": "^1.19.0",
+    "compression": "^1.7.4",
+    "cors": "^2.8.5",
+    "express": "^4.17.1",
+    "h264-mp4-encoder": "^1.0.12",
+    "immer": "^9.0.7",
+    "immutable": "^3.8.2",
+    "node-fetch": "^2.6.2",
+    "react": "^17.0.2",
+    "react-dom": "^17.0.2",
+    "rxjs": "^7.4.0",
+    "swagger-ui-dist": "^4.1.1",
+    "tslib": "^2.3.1",
+    "util.promisify": "^1.1.1",
+    "xhr2": "^0.2.1"
+  },
+  "optionalDependencies": {
+    "gl": "^4.9.2"
+  }
+}