molstar 3.3.1 → 3.4.0

package/lib/commonjs/servers/volume/config.js

@@ -8,10 +8,10 @@
 Object.defineProperty(exports, "__esModule", { value: true });
 exports.configureLocal = exports.configureServer = exports.LimitsConfig = exports.ServerConfig = void 0;
 var tslib_1 = require("tslib");
-var argparse = (0, tslib_1.__importStar)(require("argparse"));
+var argparse = tslib_1.__importStar(require("argparse"));
 var type_helpers_1 = require("../../mol-util/type-helpers");
 var version_1 = require("./server/version");
-var fs = (0, tslib_1.__importStar)(require("fs"));
+var fs = tslib_1.__importStar(require("fs"));
 var DefaultServerConfig = {
     apiPrefix: '/VolumeServer',
     defaultPort: 1337,
@@ -87,7 +87,7 @@ function addJsonConfigArgs(parser) {
     parser.add_argument('--printCfg', { help: 'Print current config for validation and exit.', required: false, action: 'store_true' });
     parser.add_argument('--cfgTemplate', { help: 'Prints default JSON config template to be modified and exits.', required: false, action: 'store_true' });
 }
-exports.ServerConfig = (0, tslib_1.__assign)({}, DefaultServerConfig);
+exports.ServerConfig = tslib_1.__assign({}, DefaultServerConfig);
 function setServerConfig(config) {
     for (var _i = 0, _a = (0, type_helpers_1.ObjectKeys)(exports.ServerConfig); _i < _a.length; _i++) {
         var k = _a[_i];
@@ -113,7 +113,7 @@ var DefaultLimitsConfig = {
         24 * 1024 * 1024
     ]
 };
-exports.LimitsConfig = (0, tslib_1.__assign)({}, DefaultLimitsConfig);
+exports.LimitsConfig = tslib_1.__assign({}, DefaultLimitsConfig);
 function setLimitsConfig(config) {
     for (var _i = 0, _a = (0, type_helpers_1.ObjectKeys)(exports.LimitsConfig); _i < _a.length; _i++) {
         var k = _a[_i];
@@ -125,7 +125,7 @@ function setConfig(config) {
     setServerConfig(config);
     setLimitsConfig(config);
 }
-var ServerConfigTemplate = (0, tslib_1.__assign)((0, tslib_1.__assign)((0, tslib_1.__assign)({}, DefaultServerConfig), { idMap: [
+var ServerConfigTemplate = tslib_1.__assign(tslib_1.__assign(tslib_1.__assign({}, DefaultServerConfig), { idMap: [
         ['x-ray', './path-to-xray-data/${id.substr(1, 2)}/${id}.mdb'],
         ['em', './path-to-em-data/emd-${id}.mdb']
     ] }), DefaultLimitsConfig);
@@ -150,7 +150,7 @@ function configureServer() {
             setConfig(cfg);
         }
         if (config.printCfg) {
-            console.log(JSON.stringify((0, tslib_1.__assign)((0, tslib_1.__assign)({}, exports.ServerConfig), exports.LimitsConfig), null, 2));
+            console.log(JSON.stringify(tslib_1.__assign(tslib_1.__assign({}, exports.ServerConfig), exports.LimitsConfig), null, 2));
             process.exit(0);
         }
         validateServerConfig();

package/lib/commonjs/servers/volume/pack/format/ccp4.js

@@ -11,9 +11,9 @@ var tslib_1 = require("tslib");
 var parser_1 = require("../../../../mol-io/reader/ccp4/parser");
 var ccp4_1 = require("../../../../mol-model-formats/volume/ccp4");
 function readHeader(name, file) {
-    return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
+    return tslib_1.__awaiter(this, void 0, void 0, function () {
         var _a, ccp4Header, littleEndian, header;
-        return (0, tslib_1.__generator)(this, function (_b) {
+        return tslib_1.__generator(this, function (_b) {
             switch (_b.label) {
                 case 0: return [4 /*yield*/, (0, parser_1.readCcp4Header)(file)];
                 case 1:
@@ -40,9 +40,9 @@ function readHeader(name, file) {
     });
 }
 function readSlices(data) {
-    return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
+    return tslib_1.__awaiter(this, void 0, void 0, function () {
         var slices, header, extent, originalHeader, sliceSize, sliceByteOffset, sliceCount, sliceByteCount;
-        return (0, tslib_1.__generator)(this, function (_a) {
+        return tslib_1.__generator(this, function (_a) {
             switch (_a.label) {
                 case 0:
                     slices = data.slices, header = data.header;

package/lib/commonjs/servers/volume/pack/format/dsn6.js

@@ -10,9 +10,9 @@ var tslib_1 = require("tslib");
 var parser_1 = require("../../../../mol-io/reader/dsn6/parser");
 var typed_array_1 = require("../../../../mol-io/common/typed-array");
 function readHeader(name, file) {
-    return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
+    return tslib_1.__awaiter(this, void 0, void 0, function () {
         var _a, dsn6Header, littleEndian, header;
-        return (0, tslib_1.__generator)(this, function (_b) {
+        return tslib_1.__generator(this, function (_b) {
             switch (_b.label) {
                 case 0: return [4 /*yield*/, (0, parser_1.readDsn6Header)(file)];
                 case 1:
@@ -37,9 +37,9 @@ function readHeader(name, file) {
     });
 }
 function readSlices(data) {
-    return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
+    return tslib_1.__awaiter(this, void 0, void 0, function () {
         var slices, header, file, extent, dataOffset, originalHeader, sliceCount, byteCount, buffer;
-        return (0, tslib_1.__generator)(this, function (_a) {
+        return tslib_1.__generator(this, function (_a) {
             switch (_a.label) {
                 case 0:
                     slices = data.slices, header = data.header, file = data.file;

package/lib/commonjs/servers/volume/pack/format.js

@@ -8,7 +8,7 @@
 Object.defineProperty(exports, "__esModule", { value: true });
 exports.open = exports.getProviderFromType = exports.compareHeaders = exports.assignSliceBuffer = void 0;
 var tslib_1 = require("tslib");
-var File = (0, tslib_1.__importStar)(require("../common/file"));
+var File = tslib_1.__importStar(require("../common/file"));
 var ccp4_1 = require("./format/ccp4");
 var typed_array_1 = require("../../../mol-io/common/typed-array");
 var dsn6_1 = require("./format/dsn6");
@@ -59,9 +59,9 @@ function getProviderFromType(type) {
 }
 exports.getProviderFromType = getProviderFromType;
 function open(name, filename, type) {
-    return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
+    return tslib_1.__awaiter(this, void 0, void 0, function () {
         var provider, descriptor, file, header, data;
-        return (0, tslib_1.__generator)(this, function (_a) {
+        return tslib_1.__generator(this, function (_a) {
             switch (_a.label) {
                 case 0:
                     provider = getProviderFromType(type);

package/lib/commonjs/servers/volume/pack/main.js

@@ -9,15 +9,15 @@
 Object.defineProperty(exports, "__esModule", { value: true });
 exports.pack = void 0;
 var tslib_1 = require("tslib");
-var Format = (0, tslib_1.__importStar)(require("./format"));
-var File = (0, tslib_1.__importStar)(require("../common/file"));
-var Data = (0, tslib_1.__importStar)(require("./data-model"));
-var Sampling = (0, tslib_1.__importStar)(require("./sampling"));
-var DataFormat = (0, tslib_1.__importStar)(require("../common/data-format"));
+var Format = tslib_1.__importStar(require("./format"));
+var File = tslib_1.__importStar(require("../common/file"));
+var Data = tslib_1.__importStar(require("./data-model"));
+var Sampling = tslib_1.__importStar(require("./sampling"));
+var DataFormat = tslib_1.__importStar(require("../common/data-format"));
 function pack(input, blockSizeInMB, isPeriodic, outputFilename, format) {
-    return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
+    return tslib_1.__awaiter(this, void 0, void 0, function () {
         var e_1;
-        return (0, tslib_1.__generator)(this, function (_a) {
+        return tslib_1.__generator(this, function (_a) {
             switch (_a.label) {
                 case 0:
                     _a.trys.push([0, 2, , 3]);
@@ -51,9 +51,9 @@ function updateAllocationProgress(progress, progressDone) {
  * Pre allocate the disk space to be able to do "random" writes into the entire file.
  */
 function allocateFile(ctx) {
-    return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
+    return tslib_1.__awaiter(this, void 0, void 0, function () {
         var totalByteSize, file, buffer, progress, written;
-        return (0, tslib_1.__generator)(this, function (_a) {
+        return tslib_1.__generator(this, function (_a) {
             totalByteSize = ctx.totalByteSize, file = ctx.file;
             buffer = Buffer.alloc(Math.min(totalByteSize, 8 * 1024 * 1024));
             progress = { current: 0, max: Math.ceil(totalByteSize / buffer.byteLength) };
@@ -80,9 +80,9 @@ function determineBlockSize(data, blockSizeInMB) {
     throw new Error('Could not determine a valid block size.');
 }
 function writeHeader(ctx) {
-    return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
+    return tslib_1.__awaiter(this, void 0, void 0, function () {
         var header;
-        return (0, tslib_1.__generator)(this, function (_a) {
+        return tslib_1.__generator(this, function (_a) {
             switch (_a.label) {
                 case 0:
                     header = DataFormat.encodeHeader(Data.createHeader(ctx));
@@ -98,9 +98,9 @@ function writeHeader(ctx) {
     });
 }
 function create(filename, sourceDensities, sourceBlockSizeInMB, isPeriodic, format) {
-    return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
+    return tslib_1.__awaiter(this, void 0, void 0, function () {
         var startedTime, files, channels_3, _i, sourceDensities_1, s, _a, _b, isOk, blockSizeInMB, _c, channels_1, ch, context, _d, channels_2, s, time, _e, files_1, f;
-        return (0, tslib_1.__generator)(this, function (_f) {
+        return tslib_1.__generator(this, function (_f) {
             switch (_f.label) {
                 case 0:
                     startedTime = getTime();

package/lib/commonjs/servers/volume/pack/sampling.js

@@ -9,19 +9,19 @@
 Object.defineProperty(exports, "__esModule", { value: true });
 exports.processData = exports.createContext = void 0;
 var tslib_1 = require("tslib");
-var Data = (0, tslib_1.__importStar)(require("./data-model"));
-var File = (0, tslib_1.__importStar)(require("../common/file"));
-var Downsampling = (0, tslib_1.__importStar)(require("./downsampling"));
-var Writer = (0, tslib_1.__importStar)(require("./writer"));
-var DataFormat = (0, tslib_1.__importStar)(require("../common/data-format"));
+var Data = tslib_1.__importStar(require("./data-model"));
+var File = tslib_1.__importStar(require("../common/file"));
+var Downsampling = tslib_1.__importStar(require("./downsampling"));
+var Writer = tslib_1.__importStar(require("./writer"));
+var DataFormat = tslib_1.__importStar(require("../common/data-format"));
 var typed_array_1 = require("../../../mol-io/common/typed-array");
 var simple_buffer_1 = require("../../../mol-io/common/simple-buffer");
 var file_handle_1 = require("../../common/file-handle");
 function createContext(filename, channels, blockSize, isPeriodic) {
-    return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
+    return tslib_1.__awaiter(this, void 0, void 0, function () {
         var _a, extent, valueType, grid, origin, samplingCounts, cubeBuffer, litteEndianCubeBuffer, ctx, _b, byteOffset, _i, _c, s;
         var _d;
-        return (0, tslib_1.__generator)(this, function (_e) {
+        return tslib_1.__generator(this, function (_e) {
             switch (_e.label) {
                 case 0:
                     _a = channels[0].data.header, extent = _a.extent, valueType = _a.valueType, grid = _a.grid, origin = _a.origin;
@@ -68,9 +68,9 @@ function createContext(filename, channels, blockSize, isPeriodic) {
 }
 exports.createContext = createContext;
 function processData(ctx) {
-    return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
+    return tslib_1.__awaiter(this, void 0, void 0, function () {
         var channel, _i, _a, src;
-        return (0, tslib_1.__generator)(this, function (_b) {
+        return tslib_1.__generator(this, function (_b) {
             switch (_b.label) {
                 case 0:
                     channel = ctx.channels[0];
@@ -213,9 +213,9 @@ function shouldSamplingBeWritten(sampling, blockSize, isDataFinished) {
     return sampling.blocks.slicesWritten >= blockSize;
 }
 function writeBlocks(ctx, isDataFinished) {
-    return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
+    return tslib_1.__awaiter(this, void 0, void 0, function () {
         var _i, _a, s;
-        return (0, tslib_1.__generator)(this, function (_b) {
+        return tslib_1.__generator(this, function (_b) {
             switch (_b.label) {
                 case 0:
                     _i = 0, _a = ctx.sampling;
@@ -238,9 +238,9 @@ function writeBlocks(ctx, isDataFinished) {
     });
 }
 function processSlices(ctx) {
-    return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
+    return tslib_1.__awaiter(this, void 0, void 0, function () {
         var channel, sliceCount, i, isDataFinished;
-        return (0, tslib_1.__generator)(this, function (_a) {
+        return tslib_1.__generator(this, function (_a) {
             switch (_a.label) {
                 case 0:
                     channel = ctx.channels[0];

package/lib/commonjs/servers/volume/pack/writer.js

@@ -13,9 +13,9 @@ var typed_array_1 = require("../../../mol-io/common/typed-array");
 var simple_buffer_1 = require("../../../mol-io/common/simple-buffer");
 /** Converts a layer to blocks and writes them to the output file. */
 function writeBlockLayer(ctx, sampling) {
-    return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
+    return tslib_1.__awaiter(this, void 0, void 0, function () {
         var nU, nV, startOffset, v, u, size;
-        return (0, tslib_1.__generator)(this, function (_a) {
+        return tslib_1.__generator(this, function (_a) {
             switch (_a.label) {
                 case 0:
                     nU = Math.ceil(sampling.sampleCount[0] / ctx.blockSize);

package/lib/commonjs/servers/volume/pack.js

@@ -10,7 +10,7 @@
  */
 Object.defineProperty(exports, "__esModule", { value: true });
 var tslib_1 = require("tslib");
-var argparse = (0, tslib_1.__importStar)(require("argparse"));
+var argparse = tslib_1.__importStar(require("argparse"));
 var main_1 = require("./pack/main");
 var version_1 = require("./pack/version");
 function getConfig(args) {

package/lib/commonjs/servers/volume/query.js

@@ -10,9 +10,9 @@
  */
 Object.defineProperty(exports, "__esModule", { value: true });
 var tslib_1 = require("tslib");
-var fs = (0, tslib_1.__importStar)(require("fs"));
+var fs = tslib_1.__importStar(require("fs"));
 var config_1 = require("./config");
-var LocalApi = (0, tslib_1.__importStar)(require("./server/local-api"));
+var LocalApi = tslib_1.__importStar(require("./server/local-api"));
 var config = (0, config_1.configureLocal)();
 if (config.jobsTemplate) {
     var exampleJobs = [{
@@ -52,9 +52,9 @@ if (config.jobsTemplate) {
     process.exit();
 }
 function run() {
-    return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
+    return tslib_1.__awaiter(this, void 0, void 0, function () {
         var jobs;
-        return (0, tslib_1.__generator)(this, function (_a) {
+        return tslib_1.__generator(this, function (_a) {
             switch (_a.label) {
                 case 0:
                     try {

package/lib/commonjs/servers/volume/server/algebra/box.js

@@ -5,7 +5,7 @@
 Object.defineProperty(exports, "__esModule", { value: true });
 exports.volume = exports.dimensions = exports.intersect = exports.areIntersecting = exports.bounding = exports.fractionalFromBlock = exports.fractionalToDomain = exports.clampGridToSamples = exports.shift = exports.expandGridBox = exports.fractionalBoxReorderAxes = exports.gridToFractional = exports.fractionalToGrid = exports.cartesianToFractional = void 0;
 var tslib_1 = require("tslib");
-var Coords = (0, tslib_1.__importStar)(require("./coordinate"));
+var Coords = tslib_1.__importStar(require("./coordinate"));
 // CONVERSIONS
 function cartesianToFractional(box, spacegroup) {
     var l = box.a, r = box.b;

package/lib/commonjs/servers/volume/server/api.js

@@ -9,10 +9,10 @@
 Object.defineProperty(exports, "__esModule", { value: true });
 exports.queryBox = exports.getExtendedHeaderJson = exports.getOutputFilename = void 0;
 var tslib_1 = require("tslib");
-var File = (0, tslib_1.__importStar)(require("../common/file"));
+var File = tslib_1.__importStar(require("../common/file"));
 var execute_1 = require("./query/execute");
 var console_logger_1 = require("../../../mol-util/console-logger");
-var DataFormat = (0, tslib_1.__importStar)(require("../common/data-format"));
+var DataFormat = tslib_1.__importStar(require("../common/data-format"));
 var config_1 = require("../config");
 var file_handle_1 = require("../../common/file-handle");
 function getOutputFilename(source, id, _a) {
@@ -30,9 +30,9 @@ function getOutputFilename(source, id, _a) {
 exports.getOutputFilename = getOutputFilename;
 /** Reads the header and includes information about available detail levels */
 function getExtendedHeaderJson(filename, sourceId) {
-    return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
+    return tslib_1.__awaiter(this, void 0, void 0, function () {
         var header, _a, sampleCount, maxVoxelCount, precisions, availablePrecisions, _i, precisions_1, p, e_1;
-        return (0, tslib_1.__generator)(this, function (_b) {
+        return tslib_1.__generator(this, function (_b) {
             switch (_b.label) {
                 case 0:
                     console_logger_1.ConsoleLogger.log('Header', sourceId);
@@ -72,8 +72,8 @@ function getExtendedHeaderJson(filename, sourceId) {
 }
 exports.getExtendedHeaderJson = getExtendedHeaderJson;
 function queryBox(params, outputProvider) {
-    return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
-        return (0, tslib_1.__generator)(this, function (_a) {
+    return tslib_1.__awaiter(this, void 0, void 0, function () {
+        return tslib_1.__generator(this, function (_a) {
             switch (_a.label) {
                 case 0: return [4 /*yield*/, (0, execute_1.execute)(params, outputProvider)];
                 case 1: return [2 /*return*/, _a.sent()];
@@ -83,9 +83,9 @@ function queryBox(params, outputProvider) {
 }
 exports.queryBox = queryBox;
 function readHeader(filename, sourceId) {
-    return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
+    return tslib_1.__awaiter(this, void 0, void 0, function () {
         var file, _a, header, e_2;
-        return (0, tslib_1.__generator)(this, function (_b) {
+        return tslib_1.__generator(this, function (_b) {
             switch (_b.label) {
                 case 0:
                     _b.trys.push([0, 3, 4, 5]);

package/lib/commonjs/servers/volume/server/local-api.js

@@ -9,14 +9,14 @@
 Object.defineProperty(exports, "__esModule", { value: true });
 exports.run = void 0;
 var tslib_1 = require("tslib");
-var Api = (0, tslib_1.__importStar)(require("./api"));
-var Coordinate = (0, tslib_1.__importStar)(require("./algebra/coordinate"));
-var fs = (0, tslib_1.__importStar)(require("fs"));
-var path = (0, tslib_1.__importStar)(require("path"));
+var Api = tslib_1.__importStar(require("./api"));
+var Coordinate = tslib_1.__importStar(require("./algebra/coordinate"));
+var fs = tslib_1.__importStar(require("fs"));
+var path = tslib_1.__importStar(require("path"));
 function run(jobs) {
-    return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
+    return tslib_1.__awaiter(this, void 0, void 0, function () {
         var progress, started, _i, jobs_1, job, e_1, elapsed;
-        return (0, tslib_1.__generator)(this, function (_a) {
+        return tslib_1.__generator(this, function (_a) {
             switch (_a.label) {
                 case 0:
                     progress = 0;
@@ -57,9 +57,9 @@ function getTime() {
 }
 function query(job) {
     var _a;
-    return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
+    return tslib_1.__awaiter(this, void 0, void 0, function () {
         var box, params, filename, res;
-        return (0, tslib_1.__generator)(this, function (_b) {
+        return tslib_1.__generator(this, function (_b) {
             switch (_b.label) {
                 case 0:
                     if (job.query.kind.toLocaleLowerCase() === 'cell') {

package/lib/commonjs/servers/volume/server/query/compose.js

@@ -9,13 +9,13 @@
 Object.defineProperty(exports, "__esModule", { value: true });
 exports.compose = void 0;
 var tslib_1 = require("tslib");
-var Box = (0, tslib_1.__importStar)(require("../algebra/box"));
-var Coords = (0, tslib_1.__importStar)(require("../algebra/coordinate"));
+var Box = tslib_1.__importStar(require("../algebra/box"));
+var Coords = tslib_1.__importStar(require("../algebra/coordinate"));
 var typed_array_1 = require("../../../../mol-io/common/typed-array");
 function compose(query) {
-    return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
+    return tslib_1.__awaiter(this, void 0, void 0, function () {
         var _i, _a, block;
-        return (0, tslib_1.__generator)(this, function (_b) {
+        return tslib_1.__generator(this, function (_b) {
             switch (_b.label) {
                 case 0:
                     _i = 0, _a = query.samplingInfo.blocks;
@@ -37,9 +37,9 @@ function compose(query) {
 }
 exports.compose = compose;
 function readBlock(query, coord, blockBox) {
-    return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
+    return tslib_1.__awaiter(this, void 0, void 0, function () {
         var _a, valueType, blockSize, elementByteSize, numChannels, blockSampleCount, size, byteSize, dataSampleCount, buffer, byteOffset, values;
-        return (0, tslib_1.__generator)(this, function (_b) {
+        return tslib_1.__generator(this, function (_b) {
             switch (_b.label) {
                 case 0:
                     _a = query.data.header, valueType = _a.valueType, blockSize = _a.blockSize;
@@ -95,9 +95,9 @@ function createBlockGridDomain(block, grid) {
 }
 /** Read the block data and fill all the overlaps with the query region. */
 function fillBlock(query, block) {
-    return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
+    return tslib_1.__awaiter(this, void 0, void 0, function () {
         var baseBox, blockGridDomain, blockData, _i, _a, offset, offsetQueryBox, dataBox, offsetDataBox, blockGridBox, queryGridBox;
-        return (0, tslib_1.__generator)(this, function (_b) {
+        return tslib_1.__generator(this, function (_b) {
             switch (_b.label) {
                 case 0:
                     baseBox = Box.fractionalFromBlock(block.coord);

package/lib/commonjs/servers/volume/server/query/execute.js

@@ -9,10 +9,10 @@
 Object.defineProperty(exports, "__esModule", { value: true });
 exports.execute = void 0;
 var tslib_1 = require("tslib");
-var DataFormat = (0, tslib_1.__importStar)(require("../../common/data-format"));
-var File = (0, tslib_1.__importStar)(require("../../common/file"));
-var Coords = (0, tslib_1.__importStar)(require("../algebra/coordinate"));
-var Box = (0, tslib_1.__importStar)(require("../algebra/box"));
+var DataFormat = tslib_1.__importStar(require("../../common/data-format"));
+var File = tslib_1.__importStar(require("../../common/file"));
+var Coords = tslib_1.__importStar(require("../algebra/coordinate"));
+var Box = tslib_1.__importStar(require("../algebra/box"));
 var console_logger_1 = require("../../../../mol-util/console-logger");
 var state_1 = require("../state");
 var identify_1 = require("./identify");
@@ -25,9 +25,9 @@ var typed_array_1 = require("../../../../mol-io/common/typed-array");
 var config_1 = require("../../config");
 var file_handle_1 = require("../../../common/file-handle");
 function execute(params, outputProvider) {
-    return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
+    return tslib_1.__awaiter(this, void 0, void 0, function () {
         var start, guid, sourceFile, _a, e_1;
-        return (0, tslib_1.__generator)(this, function (_b) {
+        return tslib_1.__generator(this, function (_b) {
             switch (_b.label) {
                 case 0:
                     start = getTime();
@@ -92,9 +92,9 @@ function createSampling(header, index, dataOffset) {
     };
 }
 function createDataContext(file) {
-    return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
+    return tslib_1.__awaiter(this, void 0, void 0, function () {
         var _a, header, dataOffset, origin, dimensions;
-        return (0, tslib_1.__generator)(this, function (_b) {
+        return tslib_1.__generator(this, function (_b) {
             switch (_b.label) {
                 case 0: return [4 /*yield*/, DataFormat.readHeader(file)];
                 case 1:
@@ -190,9 +190,9 @@ function createQueryContext(data, params, guid) {
     };
 }
 function _execute(file, params, guid, outputProvider) {
-    return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
+    return tslib_1.__awaiter(this, void 0, void 0, function () {
         var output, data, query, e_2, query;
-        return (0, tslib_1.__generator)(this, function (_a) {
+        return tslib_1.__generator(this, function (_a) {
             switch (_a.label) {
                 case 0:
                     output = void 0;

package/lib/commonjs/servers/volume/server/query/identify.js

@@ -9,8 +9,8 @@
 Object.defineProperty(exports, "__esModule", { value: true });
 exports.findUniqueBlocks = void 0;
 var tslib_1 = require("tslib");
-var Coords = (0, tslib_1.__importStar)(require("../algebra/coordinate"));
-var Box = (0, tslib_1.__importStar)(require("../algebra/box"));
+var Coords = tslib_1.__importStar(require("../algebra/coordinate"));
+var Box = tslib_1.__importStar(require("../algebra/box"));
 // import { FastMap } from '../utils/collections'
 /** Find a list of unique blocks+offsets that overlap with the query region. */
 function findUniqueBlocks(data, sampling, queryBox) {

package/lib/commonjs/servers/volume/server/web-api.js

@@ -10,8 +10,8 @@
 Object.defineProperty(exports, "__esModule", { value: true });
 exports.init = void 0;
 var tslib_1 = require("tslib");
-var Api = (0, tslib_1.__importStar)(require("./api"));
-var Coords = (0, tslib_1.__importStar)(require("./algebra/coordinate"));
+var Api = tslib_1.__importStar(require("./api"));
+var Coords = tslib_1.__importStar(require("./algebra/coordinate"));
 var console_logger_1 = require("../../../mol-util/console-logger");
 var state_1 = require("./state");
 var config_1 = require("../config");
@@ -47,7 +47,7 @@ function init(app) {
 }
 exports.init = init;
 function getMapFileFn() {
-    var map = new Function('type', 'id', 'interpolate', (0, tslib_1.__spreadArray)((0, tslib_1.__spreadArray)([
+    var map = new Function('type', 'id', 'interpolate', tslib_1.__spreadArray(tslib_1.__spreadArray([
         'id = id.toLowerCase()',
         'switch (type.toLowerCase()) {'
     ], config_1.ServerConfig.idMap.map(function (mapping) {
@@ -115,9 +115,9 @@ function validateSourceAndId(req, res) {
     return false;
 }
 function getHeader(req, res) {
-    return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
+    return tslib_1.__awaiter(this, void 0, void 0, function () {
         var headerWritten, _a, filename, id, header, e_1;
-        return (0, tslib_1.__generator)(this, function (_b) {
+        return tslib_1.__generator(this, function (_b) {
             switch (_b.label) {
                 case 0:
                     if (validateSourceAndId(req, res)) {
@@ -179,9 +179,9 @@ function getQueryParams(req, isCell) {
     };
 }
 function queryBox(req, res, params) {
-    return (0, tslib_1.__awaiter)(this, void 0, void 0, function () {
+    return tslib_1.__awaiter(this, void 0, void 0, function () {
         var outputFilename, response, ok, e_2;
-        return (0, tslib_1.__generator)(this, function (_a) {
+        return tslib_1.__generator(this, function (_a) {
             switch (_a.label) {
                 case 0:
                     if (validateSourceAndId(req, res)) {

package/lib/commonjs/servers/volume/server.js

@@ -10,8 +10,8 @@
  */
 Object.defineProperty(exports, "__esModule", { value: true });
 var tslib_1 = require("tslib");
-var compression_1 = (0, tslib_1.__importDefault)(require("compression"));
-var express_1 = (0, tslib_1.__importDefault)(require("express"));
+var compression_1 = tslib_1.__importDefault(require("compression"));
+var express_1 = tslib_1.__importDefault(require("express"));
 var console_logger_1 = require("../../mol-util/console-logger");
 var config_1 = require("./config");
 var state_1 = require("./server/state");

package/lib/examples/alpha-orbitals/controls.js

@@ -10,11 +10,11 @@ import { ParameterControls } from '../../mol-plugin-ui/controls/parameters';
 import { useBehavior } from '../../mol-plugin-ui/hooks/use-behavior';
 import { PluginContextContainer } from '../../mol-plugin-ui/plugin';
 export function mountControls(orbitals, parent) {
-    ReactDOM.render(_jsx(PluginContextContainer, __assign({ plugin: orbitals.plugin }, { children: _jsx(Controls, { orbitals: orbitals }, void 0) }), void 0), parent);
+    ReactDOM.render(_jsx(PluginContextContainer, __assign({ plugin: orbitals.plugin }, { children: _jsx(Controls, { orbitals: orbitals }) })), parent);
 }
 function Controls(_a) {
     var orbitals = _a.orbitals;
     var params = useBehavior(orbitals.params);
     var values = useBehavior(orbitals.state);
-    return _jsx(ParameterControls, { params: params, values: values, onChangeValues: function (vs) { return orbitals.state.next(vs); } }, void 0);
+    return _jsx(ParameterControls, { params: params, values: values, onChangeValues: function (vs) { return orbitals.state.next(vs); } });
 }

package/lib/examples/basic-wrapper/controls.js

@@ -12,7 +12,7 @@ var CustomToastMessage = /** @class */ (function (_super) {
         return _super !== null && _super.apply(this, arguments) || this;
     }
     CustomToastMessage.prototype.render = function () {
-        return _jsxs(_Fragment, { children: ["Custom ", _jsx("i", { children: "Toast" }, void 0), " content. No timeout."] }, void 0);
+        return _jsxs(_Fragment, { children: ["Custom ", _jsx("i", { children: "Toast" }), " content. No timeout."] });
     };
     return CustomToastMessage;
 }(PluginUIComponent));

package/lib/examples/proteopedia-wrapper/ui/controls.js

@@ -10,5 +10,5 @@ import { PluginContextContainer } from '../../../mol-plugin-ui/plugin';
 import { TransformUpdaterControl } from '../../../mol-plugin-ui/state/update-transform';
 import { StateElements } from '../helpers';
 export function volumeStreamingControls(plugin, parent) {
-    ReactDOM.render(_jsx(PluginContextContainer, __assign({ plugin: plugin }, { children: _jsx(TransformUpdaterControl, { nodeRef: StateElements.VolumeStreaming }, void 0) }), void 0), parent);
+    ReactDOM.render(_jsx(PluginContextContainer, __assign({ plugin: plugin }, { children: _jsx(TransformUpdaterControl, { nodeRef: StateElements.VolumeStreaming }) })), parent);
 }

package/lib/extensions/cellpack/model.js

@@ -29,6 +29,7 @@ import { Color } from '../../mol-util/color';
 import { objectForEach } from '../../mol-util/object';
 import { readFromFile } from '../../mol-util/data-source';
 import { ColorNames } from '../../mol-util/color/names';
+import { createBasic } from '../../mol-model-formats/structure/basic/schema';
 function getCellPackModelUrl(fileName, baseUrl) {
     return "".concat(baseUrl, "/results/").concat(fileName);
 }
@@ -358,12 +359,13 @@ function getCurve(plugin, name, ingredient, transforms, model) {
                 case 0:
                     cif = getCifCurve(name, transforms, model);
                     curveModelTask = Task.create('Curve Model', function (ctx) { return __awaiter(_this, void 0, void 0, function () {
-                        var format, models;
+                        var format, basic, models;
                         return __generator(this, function (_a) {
                             switch (_a.label) {
                                 case 0:
                                     format = MmcifFormat.fromFrame(cif);
-                                    return [4 /*yield*/, createModels(format.data.db, format, ctx)];
+                                    basic = createBasic(format.data.db, true);
+                                    return [4 /*yield*/, createModels(basic, format, ctx)];
                                 case 1:
                                     models = _a.sent();
                                     return [2 /*return*/, models.representative];

package/lib/extensions/cellpack/state.js

@@ -218,9 +218,9 @@ var ParseCellPack = PluginStateTransform.BuiltIn({
         }); });
     },
     dispose: function (_a) {
-        var _b, _c;
+        var _b;
         var cache = _a.cache;
-        (_c = (_b = cache) === null || _b === void 0 ? void 0 : _b.asset) === null || _c === void 0 ? void 0 : _c.dispose();
+        (_b = cache === null || cache === void 0 ? void 0 : cache.asset) === null || _b === void 0 ? void 0 : _b.dispose();
     },
 });
 export { StructureFromCellpack };

package/lib/extensions/geo-export/ui.js

@@ -91,8 +91,8 @@ var GeometryExporterUI = /** @class */ (function (_super) {
             this.isARSupported = !!((_b = (_a = document.createElement('a').relList) === null || _a === void 0 ? void 0 : _a.supports) === null || _b === void 0 ? void 0 : _b.call(_a, 'ar'));
         }
         var ctrl = this.controls;
-        return _jsxs(_Fragment, { children: [_jsx(ParameterControls, { params: GeometryParams, values: ctrl.behaviors.params.value, onChangeValues: function (xs) { return ctrl.behaviors.params.next(xs); }, isDisabled: this.state.busy }, void 0), _jsx(Button, __assign({ icon: GetAppSvg, onClick: this.save, style: { marginTop: 1 }, disabled: this.state.busy || !((_c = this.plugin.canvas3d) === null || _c === void 0 ? void 0 : _c.reprCount.value) }, { children: "Save" }), void 0), this.isARSupported && ctrl.behaviors.params.value.format === 'usdz' &&
-                    _jsx(Button, __assign({ icon: CubeScanSvg, onClick: this.viewInAR, style: { marginTop: 1 }, disabled: this.state.busy || !((_d = this.plugin.canvas3d) === null || _d === void 0 ? void 0 : _d.reprCount.value) }, { children: "View in AR" }), void 0)] }, void 0);
+        return _jsxs(_Fragment, { children: [_jsx(ParameterControls, { params: GeometryParams, values: ctrl.behaviors.params.value, onChangeValues: function (xs) { return ctrl.behaviors.params.next(xs); }, isDisabled: this.state.busy }), _jsx(Button, __assign({ icon: GetAppSvg, onClick: this.save, style: { marginTop: 1 }, disabled: this.state.busy || !((_c = this.plugin.canvas3d) === null || _c === void 0 ? void 0 : _c.reprCount.value) }, { children: "Save" })), this.isARSupported && ctrl.behaviors.params.value.format === 'usdz' &&
+                    _jsx(Button, __assign({ icon: CubeScanSvg, onClick: this.viewInAR, style: { marginTop: 1 }, disabled: this.state.busy || !((_d = this.plugin.canvas3d) === null || _d === void 0 ? void 0 : _d.reprCount.value) }, { children: "View in AR" }))] });
     };
     GeometryExporterUI.prototype.componentDidMount = function () {
         var _this = this;