ncbiParse/index.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 path_1 = __importDefault(require("path"));
const piscina_1 = __importDefault(require("piscina"));
(() => __awaiter(void 0, void 0, void 0, function* () {
    const getEsearch = new piscina_1.default({
        filename: path_1.default.resolve(__dirname, './workers/esearch.js')
    });
    // const orders = 
    // [
    //     {
    //         params: {
    //             db: 'nuccore',
    //             term: 'NM_001143971.2'
    //         },
    //         xpath: 'string((//Id)[1])'
    //     },
    //     {
    //         params: {
    //             db: 'gene',
    //             term: 'NM_001143971.2'
    //         },
    //         xpath: 'string((//Id)[1])'
    //     },
    // ]
    // const results = await Promise.all(orders.map(e => getEsearch.run(e)))
    // console.log(results);
    const orders = [
        // {
        //     params: {
        //         db: 'nuccore',
        //         id: '1674999401',
        //         rettype: 'gb',
        //         retmode: 'text'
        //     },
        //     xpath: '/',
        //     endpoint: 'https://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi'
        // },
        // {
        //     db: 'nuccore',
        //     id: '1674999401',
        //     rettype: 'native',
        //     retmode: 'xml',
        //     endpoint: 'https://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi'
        // },
        {
            db: 'pubmed',
            id: '19393038',
            retmode: 'xml',
            endpoint: 'https://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi',
            query: `**.AbstractText`
        },
    ];
    const results = yield Promise.all(orders.map(e => getEsearch.run(e)));
    console.log(results);
}))();