molstar
Version:
A comprehensive macromolecular library.
129 lines (128 loc) • 7.04 kB
JavaScript
;
/**
* Copyright (c) 2021 mol* contributors, licensed under MIT, See LICENSE file for more info.
*
* @author David Sehnal <david.sehnal@gmail.com>
*/
Object.defineProperty(exports, "__esModule", { value: true });
exports.exportHierarchy = void 0;
var tslib_1 = require("tslib");
var utf8_1 = require("../../mol-io/common/utf8");
var structure_1 = require("../../mol-model/structure");
var mol_task_1 = require("../../mol-task");
var date_1 = require("../../mol-util/date");
var download_1 = require("../../mol-util/download");
var zip_1 = require("../../mol-util/zip/zip");
function exportHierarchy(plugin, options) {
return tslib_1.__awaiter(this, void 0, void 0, function () {
var e_1;
return tslib_1.__generator(this, function (_a) {
switch (_a.label) {
case 0:
_a.trys.push([0, 2, , 3]);
return [4 /*yield*/, plugin.runTask(_exportHierarchy(plugin, options), { useOverlay: true })];
case 1:
_a.sent();
return [3 /*break*/, 3];
case 2:
e_1 = _a.sent();
console.error(e_1);
plugin.log.error("Model export failed. See console for details.");
return [3 /*break*/, 3];
case 3: return [2 /*return*/];
}
});
});
}
exports.exportHierarchy = exportHierarchy;
function _exportHierarchy(plugin, options) {
var _this = this;
return mol_task_1.Task.create('Export', function (ctx) { return tslib_1.__awaiter(_this, void 0, void 0, function () {
var format, structures, files, entryMap, _i, structures_1, _s, s, name_1, zipData, _a, files_1, _b, fn, data, bytes, buffer;
var _c, _d, _e, _f, _g, _h, _j, _k;
return tslib_1.__generator(this, function (_l) {
switch (_l.label) {
case 0: return [4 /*yield*/, ctx.update({ message: 'Exporting...', isIndeterminate: true, canAbort: false })];
case 1:
_l.sent();
format = (_c = options === null || options === void 0 ? void 0 : options.format) !== null && _c !== void 0 ? _c : 'cif';
structures = plugin.managers.structure.hierarchy.current.structures;
files = [];
entryMap = new Map();
_i = 0, structures_1 = structures;
_l.label = 2;
case 2:
if (!(_i < structures_1.length)) return [3 /*break*/, 7];
_s = structures_1[_i];
s = (_f = (_e = (_d = _s.transform) === null || _d === void 0 ? void 0 : _d.cell.obj) === null || _e === void 0 ? void 0 : _e.data) !== null && _f !== void 0 ? _f : (_g = _s.cell.obj) === null || _g === void 0 ? void 0 : _g.data;
if (!s)
return [3 /*break*/, 6];
if (s.models.length > 1) {
plugin.log.warn("[Export] Skipping ".concat((_h = _s.cell.obj) === null || _h === void 0 ? void 0 : _h.label, ": Multimodel exports not supported."));
return [3 /*break*/, 6];
}
if (s.units.some(function (u) { return !structure_1.Unit.isAtomic(u); })) {
plugin.log.warn("[Export] Skipping ".concat((_j = _s.cell.obj) === null || _j === void 0 ? void 0 : _j.label, ": Non-atomic model exports not supported."));
return [3 /*break*/, 6];
}
name_1 = entryMap.has(s.model.entryId)
? "".concat(s.model.entryId, "_").concat(entryMap.get(s.model.entryId) + 1, ".").concat(format)
: "".concat(s.model.entryId, ".").concat(format);
entryMap.set(s.model.entryId, ((_k = entryMap.get(s.model.entryId)) !== null && _k !== void 0 ? _k : 0) + 1);
return [4 /*yield*/, ctx.update({ message: "Exporting ".concat(s.model.entryId, "..."), isIndeterminate: true, canAbort: false })];
case 3:
_l.sent();
if (!(s.elementCount > 100000)) return [3 /*break*/, 5];
// Give UI chance to update, only needed for larger structures.
return [4 /*yield*/, new Promise(function (res) { return setTimeout(res, 50); })];
case 4:
// Give UI chance to update, only needed for larger structures.
_l.sent();
_l.label = 5;
case 5:
try {
files.push([name_1, (0, structure_1.to_mmCIF)(s.model.entryId, s, format === 'bcif', { copyAllCategories: true })]);
}
catch (e) {
if (format === 'cif' && s.elementCount > 2000000) {
plugin.log.warn("[Export] The structure might be too big to be exported as Text CIF, consider using the BinaryCIF format instead.");
}
throw e;
}
_l.label = 6;
case 6:
_i++;
return [3 /*break*/, 2];
case 7:
if (!(files.length === 1)) return [3 /*break*/, 8];
(0, download_1.download)(new Blob([files[0][1]]), files[0][0]);
return [3 /*break*/, 11];
case 8:
if (!(files.length > 1)) return [3 /*break*/, 11];
zipData = {};
for (_a = 0, files_1 = files; _a < files_1.length; _a++) {
_b = files_1[_a], fn = _b[0], data = _b[1];
if (data instanceof Uint8Array) {
zipData[fn] = data;
}
else {
bytes = new Uint8Array((0, utf8_1.utf8ByteCount)(data));
(0, utf8_1.utf8Write)(bytes, 0, data);
zipData[fn] = bytes;
}
}
return [4 /*yield*/, ctx.update({ message: "Compressing Data...", isIndeterminate: true, canAbort: false })];
case 9:
_l.sent();
return [4 /*yield*/, (0, zip_1.zip)(ctx, zipData)];
case 10:
buffer = _l.sent();
(0, download_1.download)(new Blob([new Uint8Array(buffer, 0, buffer.byteLength)]), "structures_".concat((0, date_1.getFormattedTime)(), ".zip"));
_l.label = 11;
case 11:
plugin.log.info("[Export] Done.");
return [2 /*return*/];
}
});
}); });
}