molstar
Version:
A comprehensive macromolecular library.
81 lines (80 loc) • 2.89 kB
JavaScript
/**
* Copyright (c) 2017-2019 mol* contributors, licensed under MIT, See LICENSE file for more info.
*
* @author David Sehnal <david.sehnal@gmail.com>
* @author Alexander Rose <alexander.rose@weirdbyte.de>
*/
Object.defineProperty(exports, "__esModule", { value: true });
var tslib_1 = require("tslib");
var argparse = tslib_1.__importStar(require("argparse"));
var util = tslib_1.__importStar(require("util"));
var fs = tslib_1.__importStar(require("fs"));
var zlib = tslib_1.__importStar(require("zlib"));
var converter_1 = require("./converter");
require('util.promisify').shim();
function process(srcPath, outPath, configPath, filterPath) {
return tslib_1.__awaiter(this, void 0, void 0, function () {
var config, filter, res;
return tslib_1.__generator(this, function (_a) {
switch (_a.label) {
case 0:
config = configPath ? JSON.parse(fs.readFileSync(configPath, 'utf8')) : void 0;
filter = filterPath ? fs.readFileSync(filterPath, 'utf8') : void 0;
return [4 /*yield*/, (0, converter_1.convert)(srcPath, srcPath.toLowerCase().indexOf('.bcif') > 0, config, filter)];
case 1:
res = _a.sent();
return [4 /*yield*/, write(outPath, res)];
case 2:
_a.sent();
return [2 /*return*/];
}
});
});
}
var zipAsync = util.promisify(zlib.gzip);
function write(outPath, res) {
return tslib_1.__awaiter(this, void 0, void 0, function () {
var isGz;
return tslib_1.__generator(this, function (_a) {
switch (_a.label) {
case 0:
isGz = /\.gz$/i.test(outPath);
if (!isGz) return [3 /*break*/, 2];
return [4 /*yield*/, zipAsync(res)];
case 1:
res = _a.sent();
_a.label = 2;
case 2:
fs.writeFileSync(outPath, res);
return [2 /*return*/];
}
});
});
}
function run(args) {
process(args.src, args.out, args.config, args.filter);
}
var parser = new argparse.ArgumentParser({
add_help: true,
description: 'Convert any BCIF file to a CIF file or vice versa'
});
parser.add_argument('src', {
help: 'Source file path'
});
parser.add_argument('out', {
help: 'Output file path'
});
parser.add_argument('-c', '--config', {
help: 'Optional encoding strategy/precision config path',
required: false
});
parser.add_argument('-f', '--filter', {
help: 'Optional filter whitelist/blacklist path',
required: false
});
var args = parser.parse_args();
if (args) {
run(args);
}
;