uniprotParser/test.js

"use strict";
var __awaiter = (this && this.__awaiter) || function (thisArg, _arguments, P, generator) {
    function adopt(value) { return value instanceof P ? value : new P(function (resolve) { resolve(value); }); }
    return new (P || (P = Promise))(function (resolve, reject) {
        function fulfilled(value) { try { step(generator.next(value)); } catch (e) { reject(e); } }
        function rejected(value) { try { step(generator["throw"](value)); } catch (e) { reject(e); } }
        function step(result) { result.done ? resolve(result.value) : adopt(result.value).then(fulfilled, rejected); }
        step((generator = generator.apply(thisArg, _arguments || [])).next());
    });
};
var __importDefault = (this && this.__importDefault) || function (mod) {
    return (mod && mod.__esModule) ? mod : { "default": mod };
};
Object.defineProperty(exports, "__esModule", { value: true });
const _1 = require(".");
const fs_1 = __importDefault(require("fs"));
(() => __awaiter(void 0, void 0, void 0, function* () {
    // https://ftp.uniprot.org/pub/databases/uniprot/current_release/knowledgebase/taxonomic_divisions/
    // https://ftp.uniprot.org/pub/databases/uniprot/current_release/knowledgebase/idmapping/by_organism/HUMAN_9606_idmapping.dat.gz
    const idmappingPath = '/home/thomas/NGS/ref/UNIPROT/HUMAN_9606_idmapping.dat';
    const uniprotDB = '/home/thomas/NGS/ref/UNIPROT/uniprot_sprot_human.xml';
    // const n = await getEntryFromGeneName(idmappingPath, uniprotDB, 'TTC23L')
    // await fs.promises.writeFile('test/test-CITED2.json', JSON.stringify(n, null, 4))
    // console.log(await getInteractionsFromEntry(n))
    const geneName = 'ARL14EPL';
    const n = yield (0, _1.getEntryFromGeneName)(idmappingPath, uniprotDB, geneName);
    yield fs_1.default.promises.writeFile('test/test-' + geneName + '.json', JSON.stringify(n, null, 4));
    const tmp = yield (0, _1.getInteractionsFromEntry)(n);
    console.log(tmp);
}))();