From ff674cc52aff9eead74263527e5a6869aaf86ff5 Mon Sep 17 00:00:00 2001
From: Davi Ortega <ortegad@caltech.edu>
Date: Tue, 4 Dec 2018 01:58:46 -0800
Subject: [PATCH] taxonomy getParents and getParentsMany

---
 src/Taxonomy.js       |  95 ++++
 src/Taxonomy.tests.js | 993 ++++++++++++++++++++++++++++++++++++++++++
 2 files changed, 1088 insertions(+)
 create mode 100644 src/Taxonomy.js
 create mode 100644 src/Taxonomy.tests.js

diff --git a/src/Taxonomy.js b/src/Taxonomy.js
new file mode 100644
index 0000000..071db8e
--- /dev/null
+++ b/src/Taxonomy.js
@@ -0,0 +1,95 @@
+'use strict'
+
+const https = require('https')
+const bunyan = require('bunyan')
+
+const NodeMist3 = require('./NodeMist3Abstract')
+
+const kDefaults = {
+	maxRequests: 30
+}
+
+module.exports =
+class Taxonomy extends NodeMist3 {
+	constructor(options, logLevel = 'info') {
+		super(options)
+		this.log = bunyan.createLogger(
+			{
+				name: 'node-mist3-taxonomy',
+				level: logLevel
+			}
+		)
+	}
+
+	getParents(taxid, options = {skipFailed: false}) {
+		this.log.info(`Getting parents of taxid: ${taxid} with options ${JSON.stringify(options)}`)
+		this.httpsOptions.method = 'GET'
+		this.httpsOptions.path = `/v1/taxonomy/${taxid}/parents`
+		return new Promise((resolve, reject) => {
+			const request = https.request(this.httpsOptions, (response) => {
+				if (response.statusCode === 504) {
+					if (options.skipFailed){
+						this.log.warn(`taxid ${taxid} ::: ${response.statusCode} - ${response.statusMessage}`)
+						return resolve([])
+					}
+					else {
+						this.log.error(`taxid ${taxid} ::: ${response.statusCode} - ${response.statusMessage}`)
+						return reject(response.statusCode)
+					}
+				}
+				const chunks = []
+				response.on('data', (chunk) => chunks.push(chunk))
+				response.on('end', () => {
+					const buffer = Buffer.concat(chunks)
+					let taxonomy = []
+					try {
+						taxonomy = JSON.parse(buffer)
+						resolve(taxonomy)
+					}
+					catch (err) {
+						if (options.skipFailed === true){
+							this.log.warn(buffer.toString())
+							resolve([])
+						}
+						else {
+							console.log('hey')
+							this.log.error(buffer.toString())
+							reject(err)
+						}
+					}
+				})
+				response.on('error', (err) => {
+					this.log.fatal(err)
+					reject(err)
+				})
+			})
+			request.end()
+		})
+	}
+
+	getParentsMany(taxids, options = {skipFailed: true}) {
+		const tmpTaxids = []
+		taxids.forEach((taxid) => tmpTaxids.push(taxid))
+		this.log.info(`getting taxonomy from ${tmpTaxids.length} taxids`)
+		const self = this
+		async function asyncGetMany (listOfTaxids) {
+			const allResponses = []
+			self.log.debug(`Full list: ${listOfTaxids}`)
+			while (listOfTaxids.length !== 0) {
+				const requests = []
+				const batch = listOfTaxids.splice(0, kDefaults.maxRequests)
+				self.log.debug(`new Batch: ${batch}`)
+				batch.forEach((taxid) => requests.push(self.getParents(taxid, options)))
+				await Promise.all(requests).then((responses) => {
+					responses.forEach((response) => {
+						allResponses.push(response)
+					})
+				}).catch((err) => {
+					throw err
+				})
+			}
+			return allResponses
+		}
+		return asyncGetMany(tmpTaxids)
+	}
+}
diff --git a/src/Taxonomy.tests.js b/src/Taxonomy.tests.js
new file mode 100644
index 0000000..e48df80
--- /dev/null
+++ b/src/Taxonomy.tests.js
@@ -0,0 +1,993 @@
+/* eslint-disable no-magic-numbers */
+'use strict'
+
+const chai = require('chai')
+const chaiAsPromised = require('chai-as-promised')
+
+chai.use(chaiAsPromised)
+
+const expect = chai.expect
+const should = chai.should()
+
+const Taxonomy = require('./Taxonomy')
+
+describe('Taxonomy', function() {
+	describe('getParents', function() {
+		it('should work with one', function() {
+			const taxid = 562
+			const expected = [
+				{
+					id: 131567,
+					parent_taxonomy_id: 1,
+					name: 'cellular organisms',
+					rank: 'no rank'
+				},
+				{
+					id: 2,
+					parent_taxonomy_id: 131567,
+					name: 'Bacteria',
+					rank: 'superkingdom'
+				},
+				{
+					id: 1224,
+					parent_taxonomy_id: 2,
+					name: 'Proteobacteria',
+					rank: 'phylum'
+				},
+				{
+					id: 1236,
+					parent_taxonomy_id: 1224,
+					name: 'Gammaproteobacteria',
+					rank: 'class'
+				},
+				{
+					id: 91347,
+					parent_taxonomy_id: 1236,
+					name: 'Enterobacterales',
+					rank: 'order'
+				},
+				{
+					id: 543,
+					parent_taxonomy_id: 91347,
+					name: 'Enterobacteriaceae',
+					rank: 'family'
+				},
+				{
+					id: 561,
+					parent_taxonomy_id: 543,
+					name: 'Escherichia',
+					rank: 'genus'
+				},
+				{
+					id: 562,
+					parent_taxonomy_id: 561,
+					name: 'Escherichia coli',
+					rank: 'species'
+				}
+			]
+			const taxonomy = new Taxonomy()
+			return taxonomy.getParents(taxid).then((results) => {
+				expect(results).eql(expected)
+			})
+		})
+		it('should reject with invalid taxid', function() {
+			this.timeout(60000)
+			const taxid = 11676
+			const taxonomy = new Taxonomy()
+			return taxonomy.getParents(taxid).should.be.rejected
+		})
+	})
+	describe('getParentsMany', function() {
+		it('should work with valid list of ids', function () {
+			const taxids = [
+				2285,
+				2287,
+				2289,
+				2293,
+				235,
+				235279,
+				2374,
+				24
+			]
+			const expected = [
+				[
+					{
+						id: 131567,
+						name: 'cellular organisms',
+						parent_taxonomy_id: 1,
+						rank: 'no rank'
+					},
+					{
+						id: 2157,
+						name: 'Archaea',
+						parent_taxonomy_id: 131567,
+						rank: 'superkingdom'
+					},
+					{
+						id: 1783275,
+						name: 'TACK group',
+						parent_taxonomy_id: 2157,
+						rank: 'no rank'
+					},
+					{
+						id: 28889,
+						name: 'Crenarchaeota',
+						parent_taxonomy_id: 1783275,
+						rank: 'phylum'
+					},
+					{
+						id: 183924,
+						name: 'Thermoprotei',
+						parent_taxonomy_id: 28889,
+						rank: 'class'
+					},
+					{
+						id: 2281,
+						name: 'Sulfolobales',
+						parent_taxonomy_id: 183924,
+						rank: 'order'
+					},
+					{
+						id: 118883,
+						name: 'Sulfolobaceae',
+						parent_taxonomy_id: 2281,
+						rank: 'family'
+					},
+					{
+						id: 2284,
+						name: 'Sulfolobus',
+						parent_taxonomy_id: 118883,
+						rank: 'genus'
+					},
+					{
+						id: 2285,
+						name: 'Sulfolobus acidocaldarius',
+						parent_taxonomy_id: 2284,
+						rank: 'species'
+					}
+				],
+				[
+					{
+						id: 131567,
+						name: 'cellular organisms',
+						parent_taxonomy_id: 1,
+						rank: 'no rank'
+					},
+					{
+						id: 2157,
+						name: 'Archaea',
+						parent_taxonomy_id: 131567,
+						rank: 'superkingdom'
+					},
+					{
+						id: 1783275,
+						name: 'TACK group',
+						parent_taxonomy_id: 2157,
+						rank: 'no rank'
+					},
+					{
+						id: 28889,
+						name: 'Crenarchaeota',
+						parent_taxonomy_id: 1783275,
+						rank: 'phylum'
+					},
+					{
+						id: 183924,
+						name: 'Thermoprotei',
+						parent_taxonomy_id: 28889,
+						rank: 'class'
+					},
+					{
+						id: 2281,
+						name: 'Sulfolobales',
+						parent_taxonomy_id: 183924,
+						rank: 'order'
+					},
+					{
+						id: 118883,
+						name: 'Sulfolobaceae',
+						parent_taxonomy_id: 2281,
+						rank: 'family'
+					},
+					{
+						id: 2284,
+						name: 'Sulfolobus',
+						parent_taxonomy_id: 118883,
+						rank: 'genus'
+					},
+					{
+						id: 2287,
+						name: 'Sulfolobus solfataricus',
+						parent_taxonomy_id: 2284,
+						rank: 'species'
+					}
+				],
+				[
+					{
+						id: 131567,
+						name: 'cellular organisms',
+						parent_taxonomy_id: 1,
+						rank: 'no rank'
+					},
+					{
+						id: 2,
+						name: 'Bacteria',
+						parent_taxonomy_id: 131567,
+						rank: 'superkingdom'
+					},
+					{
+						id: 1224,
+						name: 'Proteobacteria',
+						parent_taxonomy_id: 2,
+						rank: 'phylum'
+					},
+					{
+						id: 68525,
+						name: 'delta/epsilon subdivisions',
+						parent_taxonomy_id: 1224,
+						rank: 'subphylum'
+					},
+					{
+						id: 28221,
+						name: 'Deltaproteobacteria',
+						parent_taxonomy_id: 68525,
+						rank: 'class'
+					},
+					{
+						id: 213118,
+						name: 'Desulfobacterales',
+						parent_taxonomy_id: 28221,
+						rank: 'order'
+					},
+					{
+						id: 213119,
+						name: 'Desulfobacteraceae',
+						parent_taxonomy_id: 213118,
+						rank: 'family'
+					},
+					{
+						id: 2289,
+						name: 'Desulfobacter',
+						parent_taxonomy_id: 213119,
+						rank: 'genus'
+					}
+				],
+				[
+					{
+						id: 131567,
+						name: 'cellular organisms',
+						parent_taxonomy_id: 1,
+						rank: 'no rank'
+					},
+					{
+						id: 2,
+						name: 'Bacteria',
+						parent_taxonomy_id: 131567,
+						rank: 'superkingdom'
+					},
+					{
+						id: 1224,
+						name: 'Proteobacteria',
+						parent_taxonomy_id: 2,
+						rank: 'phylum'
+					},
+					{
+						id: 68525,
+						name: 'delta/epsilon subdivisions',
+						parent_taxonomy_id: 1224,
+						rank: 'subphylum'
+					},
+					{
+						id: 28221,
+						name: 'Deltaproteobacteria',
+						parent_taxonomy_id: 68525,
+						rank: 'class'
+					},
+					{
+						id: 213118,
+						name: 'Desulfobacterales',
+						parent_taxonomy_id: 28221,
+						rank: 'order'
+					},
+					{
+						id: 213119,
+						name: 'Desulfobacteraceae',
+						parent_taxonomy_id: 213118,
+						rank: 'family'
+					},
+					{
+						id: 2289,
+						name: 'Desulfobacter',
+						parent_taxonomy_id: 213119,
+						rank: 'genus'
+					},
+					{
+						id: 2293,
+						name: 'Desulfobacter postgatei',
+						parent_taxonomy_id: 2289,
+						rank: 'species'
+					}
+				],
+				[
+					{
+						id: 131567,
+						name: 'cellular organisms',
+						parent_taxonomy_id: 1,
+						rank: 'no rank'
+					},
+					{
+						id: 2,
+						name: 'Bacteria',
+						parent_taxonomy_id: 131567,
+						rank: 'superkingdom'
+					},
+					{
+						id: 1224,
+						name: 'Proteobacteria',
+						parent_taxonomy_id: 2,
+						rank: 'phylum'
+					},
+					{
+						id: 28211,
+						name: 'Alphaproteobacteria',
+						parent_taxonomy_id: 1224,
+						rank: 'class'
+					},
+					{
+						id: 356,
+						name: 'Rhizobiales',
+						parent_taxonomy_id: 28211,
+						rank: 'order'
+					},
+					{
+						id: 118882,
+						name: 'Brucellaceae',
+						parent_taxonomy_id: 356,
+						rank: 'family'
+					},
+					{
+						id: 234,
+						name: 'Brucella',
+						parent_taxonomy_id: 118882,
+						rank: 'genus'
+					},
+					{
+						id: 235,
+						name: 'Brucella abortus',
+						parent_taxonomy_id: 234,
+						rank: 'species'
+					}
+				],
+				[
+					{
+						id: 131567,
+						name: 'cellular organisms',
+						parent_taxonomy_id: 1,
+						rank: 'no rank'
+					},
+					{
+						id: 2,
+						name: 'Bacteria',
+						parent_taxonomy_id: 131567,
+						rank: 'superkingdom'
+					},
+					{
+						id: 1224,
+						name: 'Proteobacteria',
+						parent_taxonomy_id: 2,
+						rank: 'phylum'
+					},
+					{
+						id: 68525,
+						name: 'delta/epsilon subdivisions',
+						parent_taxonomy_id: 1224,
+						rank: 'subphylum'
+					},
+					{
+						id: 29547,
+						name: 'Epsilonproteobacteria',
+						parent_taxonomy_id: 68525,
+						rank: 'class'
+					},
+					{
+						id: 213849,
+						name: 'Campylobacterales',
+						parent_taxonomy_id: 29547,
+						rank: 'order'
+					},
+					{
+						id: 72293,
+						name: 'Helicobacteraceae',
+						parent_taxonomy_id: 213849,
+						rank: 'family'
+					},
+					{
+						id: 209,
+						name: 'Helicobacter',
+						parent_taxonomy_id: 72293,
+						rank: 'genus'
+					},
+					{
+						id: 32025,
+						name: 'Helicobacter hepaticus',
+						parent_taxonomy_id: 209,
+						rank: 'species'
+					},
+					{
+						id: 235279,
+						name: 'Helicobacter hepaticus ATCC 51449',
+						parent_taxonomy_id: 32025,
+						rank: 'no rank'
+					}
+				],
+				[
+					{
+						id: 131567,
+						name: 'cellular organisms',
+						parent_taxonomy_id: 1,
+						rank: 'no rank'
+					},
+					{
+						id: 2,
+						name: 'Bacteria',
+						parent_taxonomy_id: 131567,
+						rank: 'superkingdom'
+					},
+					{
+						id: 1783272,
+						name: 'Terrabacteria group',
+						parent_taxonomy_id: 2,
+						rank: 'no rank'
+					},
+					{
+						id: 1239,
+						name: 'Firmicutes',
+						parent_taxonomy_id: 1783272,
+						rank: 'phylum'
+					},
+					{
+						id: 909932,
+						name: 'Negativicutes',
+						parent_taxonomy_id: 1239,
+						rank: 'class'
+					},
+					{
+						id: 909929,
+						name: 'Selenomonadales',
+						parent_taxonomy_id: 909932,
+						rank: 'order'
+					},
+					{
+						id: 1843490,
+						name: 'Sporomusaceae',
+						parent_taxonomy_id: 909929,
+						rank: 'family'
+					},
+					{
+						id: 2373,
+						name: 'Acetonema',
+						parent_taxonomy_id: 1843490,
+						rank: 'genus'
+					},
+					{
+						id: 2374,
+						name: 'Acetonema longum',
+						parent_taxonomy_id: 2373,
+						rank: 'species'
+					}
+				],
+				[
+					{
+						id: 131567,
+						name: 'cellular organisms',
+						parent_taxonomy_id: 1,
+						rank: 'no rank'
+					},
+					{
+						id: 2,
+						name: 'Bacteria',
+						parent_taxonomy_id: 131567,
+						rank: 'superkingdom'
+					},
+					{
+						id: 1224,
+						name: 'Proteobacteria',
+						parent_taxonomy_id: 2,
+						rank: 'phylum'
+					},
+					{
+						id: 1236,
+						name: 'Gammaproteobacteria',
+						parent_taxonomy_id: 1224,
+						rank: 'class'
+					},
+					{
+						id: 135622,
+						name: 'Alteromonadales',
+						parent_taxonomy_id: 1236,
+						rank: 'order'
+					},
+					{
+						id: 267890,
+						name: 'Shewanellaceae',
+						parent_taxonomy_id: 135622,
+						rank: 'family'
+					},
+					{
+						id: 22,
+						name: 'Shewanella',
+						parent_taxonomy_id: 267890,
+						rank: 'genus'
+					},
+					{
+						id: 24,
+						name: 'Shewanella putrefaciens',
+						parent_taxonomy_id: 22,
+						rank: 'species'
+					}
+				]
+			]
+			const taxonomy = new Taxonomy()
+			return taxonomy.getParentsMany(taxids).then((results) => {
+				expect(results).eql(expected)
+			})
+		})
+		it('should work with valid list of ids', function () {
+			this.timeout(60000)
+			const taxids = [
+				2285,
+				2287,
+				2289,
+				2293,
+				235,
+				235279,
+				2374,
+				24,
+				11676
+			]
+			const expected = [
+				[
+					{
+						id: 131567,
+						name: 'cellular organisms',
+						parent_taxonomy_id: 1,
+						rank: 'no rank'
+					},
+					{
+						id: 2157,
+						name: 'Archaea',
+						parent_taxonomy_id: 131567,
+						rank: 'superkingdom'
+					},
+					{
+						id: 1783275,
+						name: 'TACK group',
+						parent_taxonomy_id: 2157,
+						rank: 'no rank'
+					},
+					{
+						id: 28889,
+						name: 'Crenarchaeota',
+						parent_taxonomy_id: 1783275,
+						rank: 'phylum'
+					},
+					{
+						id: 183924,
+						name: 'Thermoprotei',
+						parent_taxonomy_id: 28889,
+						rank: 'class'
+					},
+					{
+						id: 2281,
+						name: 'Sulfolobales',
+						parent_taxonomy_id: 183924,
+						rank: 'order'
+					},
+					{
+						id: 118883,
+						name: 'Sulfolobaceae',
+						parent_taxonomy_id: 2281,
+						rank: 'family'
+					},
+					{
+						id: 2284,
+						name: 'Sulfolobus',
+						parent_taxonomy_id: 118883,
+						rank: 'genus'
+					},
+					{
+						id: 2285,
+						name: 'Sulfolobus acidocaldarius',
+						parent_taxonomy_id: 2284,
+						rank: 'species'
+					}
+				],
+				[
+					{
+						id: 131567,
+						name: 'cellular organisms',
+						parent_taxonomy_id: 1,
+						rank: 'no rank'
+					},
+					{
+						id: 2157,
+						name: 'Archaea',
+						parent_taxonomy_id: 131567,
+						rank: 'superkingdom'
+					},
+					{
+						id: 1783275,
+						name: 'TACK group',
+						parent_taxonomy_id: 2157,
+						rank: 'no rank'
+					},
+					{
+						id: 28889,
+						name: 'Crenarchaeota',
+						parent_taxonomy_id: 1783275,
+						rank: 'phylum'
+					},
+					{
+						id: 183924,
+						name: 'Thermoprotei',
+						parent_taxonomy_id: 28889,
+						rank: 'class'
+					},
+					{
+						id: 2281,
+						name: 'Sulfolobales',
+						parent_taxonomy_id: 183924,
+						rank: 'order'
+					},
+					{
+						id: 118883,
+						name: 'Sulfolobaceae',
+						parent_taxonomy_id: 2281,
+						rank: 'family'
+					},
+					{
+						id: 2284,
+						name: 'Sulfolobus',
+						parent_taxonomy_id: 118883,
+						rank: 'genus'
+					},
+					{
+						id: 2287,
+						name: 'Sulfolobus solfataricus',
+						parent_taxonomy_id: 2284,
+						rank: 'species'
+					}
+				],
+				[
+					{
+						id: 131567,
+						name: 'cellular organisms',
+						parent_taxonomy_id: 1,
+						rank: 'no rank'
+					},
+					{
+						id: 2,
+						name: 'Bacteria',
+						parent_taxonomy_id: 131567,
+						rank: 'superkingdom'
+					},
+					{
+						id: 1224,
+						name: 'Proteobacteria',
+						parent_taxonomy_id: 2,
+						rank: 'phylum'
+					},
+					{
+						id: 68525,
+						name: 'delta/epsilon subdivisions',
+						parent_taxonomy_id: 1224,
+						rank: 'subphylum'
+					},
+					{
+						id: 28221,
+						name: 'Deltaproteobacteria',
+						parent_taxonomy_id: 68525,
+						rank: 'class'
+					},
+					{
+						id: 213118,
+						name: 'Desulfobacterales',
+						parent_taxonomy_id: 28221,
+						rank: 'order'
+					},
+					{
+						id: 213119,
+						name: 'Desulfobacteraceae',
+						parent_taxonomy_id: 213118,
+						rank: 'family'
+					},
+					{
+						id: 2289,
+						name: 'Desulfobacter',
+						parent_taxonomy_id: 213119,
+						rank: 'genus'
+					}
+				],
+				[
+					{
+						id: 131567,
+						name: 'cellular organisms',
+						parent_taxonomy_id: 1,
+						rank: 'no rank'
+					},
+					{
+						id: 2,
+						name: 'Bacteria',
+						parent_taxonomy_id: 131567,
+						rank: 'superkingdom'
+					},
+					{
+						id: 1224,
+						name: 'Proteobacteria',
+						parent_taxonomy_id: 2,
+						rank: 'phylum'
+					},
+					{
+						id: 68525,
+						name: 'delta/epsilon subdivisions',
+						parent_taxonomy_id: 1224,
+						rank: 'subphylum'
+					},
+					{
+						id: 28221,
+						name: 'Deltaproteobacteria',
+						parent_taxonomy_id: 68525,
+						rank: 'class'
+					},
+					{
+						id: 213118,
+						name: 'Desulfobacterales',
+						parent_taxonomy_id: 28221,
+						rank: 'order'
+					},
+					{
+						id: 213119,
+						name: 'Desulfobacteraceae',
+						parent_taxonomy_id: 213118,
+						rank: 'family'
+					},
+					{
+						id: 2289,
+						name: 'Desulfobacter',
+						parent_taxonomy_id: 213119,
+						rank: 'genus'
+					},
+					{
+						id: 2293,
+						name: 'Desulfobacter postgatei',
+						parent_taxonomy_id: 2289,
+						rank: 'species'
+					}
+				],
+				[
+					{
+						id: 131567,
+						name: 'cellular organisms',
+						parent_taxonomy_id: 1,
+						rank: 'no rank'
+					},
+					{
+						id: 2,
+						name: 'Bacteria',
+						parent_taxonomy_id: 131567,
+						rank: 'superkingdom'
+					},
+					{
+						id: 1224,
+						name: 'Proteobacteria',
+						parent_taxonomy_id: 2,
+						rank: 'phylum'
+					},
+					{
+						id: 28211,
+						name: 'Alphaproteobacteria',
+						parent_taxonomy_id: 1224,
+						rank: 'class'
+					},
+					{
+						id: 356,
+						name: 'Rhizobiales',
+						parent_taxonomy_id: 28211,
+						rank: 'order'
+					},
+					{
+						id: 118882,
+						name: 'Brucellaceae',
+						parent_taxonomy_id: 356,
+						rank: 'family'
+					},
+					{
+						id: 234,
+						name: 'Brucella',
+						parent_taxonomy_id: 118882,
+						rank: 'genus'
+					},
+					{
+						id: 235,
+						name: 'Brucella abortus',
+						parent_taxonomy_id: 234,
+						rank: 'species'
+					}
+				],
+				[
+					{
+						id: 131567,
+						name: 'cellular organisms',
+						parent_taxonomy_id: 1,
+						rank: 'no rank'
+					},
+					{
+						id: 2,
+						name: 'Bacteria',
+						parent_taxonomy_id: 131567,
+						rank: 'superkingdom'
+					},
+					{
+						id: 1224,
+						name: 'Proteobacteria',
+						parent_taxonomy_id: 2,
+						rank: 'phylum'
+					},
+					{
+						id: 68525,
+						name: 'delta/epsilon subdivisions',
+						parent_taxonomy_id: 1224,
+						rank: 'subphylum'
+					},
+					{
+						id: 29547,
+						name: 'Epsilonproteobacteria',
+						parent_taxonomy_id: 68525,
+						rank: 'class'
+					},
+					{
+						id: 213849,
+						name: 'Campylobacterales',
+						parent_taxonomy_id: 29547,
+						rank: 'order'
+					},
+					{
+						id: 72293,
+						name: 'Helicobacteraceae',
+						parent_taxonomy_id: 213849,
+						rank: 'family'
+					},
+					{
+						id: 209,
+						name: 'Helicobacter',
+						parent_taxonomy_id: 72293,
+						rank: 'genus'
+					},
+					{
+						id: 32025,
+						name: 'Helicobacter hepaticus',
+						parent_taxonomy_id: 209,
+						rank: 'species'
+					},
+					{
+						id: 235279,
+						name: 'Helicobacter hepaticus ATCC 51449',
+						parent_taxonomy_id: 32025,
+						rank: 'no rank'
+					}
+				],
+				[
+					{
+						id: 131567,
+						name: 'cellular organisms',
+						parent_taxonomy_id: 1,
+						rank: 'no rank'
+					},
+					{
+						id: 2,
+						name: 'Bacteria',
+						parent_taxonomy_id: 131567,
+						rank: 'superkingdom'
+					},
+					{
+						id: 1783272,
+						name: 'Terrabacteria group',
+						parent_taxonomy_id: 2,
+						rank: 'no rank'
+					},
+					{
+						id: 1239,
+						name: 'Firmicutes',
+						parent_taxonomy_id: 1783272,
+						rank: 'phylum'
+					},
+					{
+						id: 909932,
+						name: 'Negativicutes',
+						parent_taxonomy_id: 1239,
+						rank: 'class'
+					},
+					{
+						id: 909929,
+						name: 'Selenomonadales',
+						parent_taxonomy_id: 909932,
+						rank: 'order'
+					},
+					{
+						id: 1843490,
+						name: 'Sporomusaceae',
+						parent_taxonomy_id: 909929,
+						rank: 'family'
+					},
+					{
+						id: 2373,
+						name: 'Acetonema',
+						parent_taxonomy_id: 1843490,
+						rank: 'genus'
+					},
+					{
+						id: 2374,
+						name: 'Acetonema longum',
+						parent_taxonomy_id: 2373,
+						rank: 'species'
+					}
+				],
+				[
+					{
+						id: 131567,
+						name: 'cellular organisms',
+						parent_taxonomy_id: 1,
+						rank: 'no rank'
+					},
+					{
+						id: 2,
+						name: 'Bacteria',
+						parent_taxonomy_id: 131567,
+						rank: 'superkingdom'
+					},
+					{
+						id: 1224,
+						name: 'Proteobacteria',
+						parent_taxonomy_id: 2,
+						rank: 'phylum'
+					},
+					{
+						id: 1236,
+						name: 'Gammaproteobacteria',
+						parent_taxonomy_id: 1224,
+						rank: 'class'
+					},
+					{
+						id: 135622,
+						name: 'Alteromonadales',
+						parent_taxonomy_id: 1236,
+						rank: 'order'
+					},
+					{
+						id: 267890,
+						name: 'Shewanellaceae',
+						parent_taxonomy_id: 135622,
+						rank: 'family'
+					},
+					{
+						id: 22,
+						name: 'Shewanella',
+						parent_taxonomy_id: 267890,
+						rank: 'genus'
+					},
+					{
+						id: 24,
+						name: 'Shewanella putrefaciens',
+						parent_taxonomy_id: 22,
+						rank: 'species'
+					}
+				],
+				[]
+			]
+			const taxonomy = new Taxonomy()
+			return taxonomy.getParentsMany(taxids).then((results) => {
+				expect(results).eql(expected)
+			})
+		})
+	})
+})
\ No newline at end of file