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test.js
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test.js
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const chaiHttp = require('chai-http')
const chai = require('chai')
const { assert, expect } = require('chai')
const server = require('./server/server')
const app = require('./app')
chai.use(chaiHttp)
let sessionID = ''
let projectID = ''
describe('App', function() {
it('should create an open connection to the MongoDB server', () =>
assert.strictEqual(server.connection.readyState, 1))
describe('Profile functions', function() {
it('should be able to register test user', () => {
return chai
.request(app)
.post('/users/register?json=true')
.set('content-type', 'application/json')
.send({ email: 'test@user.com', password: 'password' })
.then(res => {
assert.hasAllKeys(res.body, ['__v', '_id', 'email', 'password', 'settings', 'role'])
assert.equal(res.body.email, 'test@user.com', 'eMail does not match!')
assert.equal(res.body.role, 'User', 'Role does not match!')
})
})
it('should be able to login', () => {
return chai
.request(app)
.post('/users/login')
.send({ email: 'test@user.com', password: 'password', json: 'true' })
.then(res => {
assert.strictEqual(res.status, 200)
assert.isObject(res.body)
assert.isNotEmpty(res.body)
assert.strictEqual(res.body.email, 'test@user.com')
assert.strictEqual(res.body.role, 'User')
expect(res).to.have.cookie('connect.sid')
sessionID = res.header['set-cookie']
})
})
it('should be able to remove test user', () => {
return chai
.request(app)
.post('/users/remove?json=true')
.set('cookie', sessionID)
.send()
.then(res => {
assert.isObject(res.body)
assert.hasAllKeys(res.body, ['_id', 'email', 'password', 'settings', '__v', 'role'])
})
})
})
describe('Projects', function() {
before(function(done) {
let agent = chai.request.agent(app)
agent
.post('/users/register?json=true')
.set('content-type', 'application/json')
.send({ email: 'test@user.com', password: 'password' })
.then(res => {
agent
.post('/users/login')
.send({ email: 'test@user.com', password: 'password', json: 'true' })
.then(res => {
sessionID = res.header['set-cookie']
expect(res).to.have.status(200)
done()
})
})
})
context('Project management routes', function() {
it('should be able to upload a new project', function() {
return chai
.request(app)
.post('/projects/upload')
.set('cookie', sessionID)
.field('projectname', 'Test Project')
.field('projecttype', 'qa')
.field('settings', 'null')
.field('status', 'queued')
.attach('files', './public/test/test.fastq', { filename: 'test.fastq' })
.attach('files', './public/test/test2.fastq', { filename: 'test2.fastq' })
.then(res => {
expect(res).to.have.status(200)
expect(res.body).to.be.an('object')
expect(res.body).to.have.property('_id')
expect(res.body).to.have.property('projectname')
expect(res.body).to.have.property('projecttype')
expect(res.body).to.have.property('status')
expect(res.body).to.have.property('pid')
expect(res.body).to.have.property('files')
})
})
it('should be able to get list of testusers projects', function() {
return chai
.request(app)
.get('/projects?json=true')
.set('cookie', sessionID)
.then(res => {
expect(res).to.have.status(200)
expect(res.body).to.be.an('array')
expect(res.body).to.have.length.greaterThan(0)
projectID = res.body[0]._id
})
})
it('should be able to get projects stats', function() {
return chai
.request(app)
.get(`/projects/${projectID}?json=true`)
.set('cookie', sessionID)
.then(res => {
expect(res).to.have.status(200)
expect(res.body).to.be.an('object')
expect(res.body._id).to.equal(projectID)
})
})
it('should be able to start the project', function(done) {
// Give the job time to finish
this.timeout(5000)
chai
.request(app)
.put(`/projects/${projectID}/start`)
.set('cookie', sessionID)
.then(res => {
expect(res).to.have.status(200)
expect(res.body).to.have.property('_id')
expect(res.body).to.have.property('status')
expect(res.body._id).to.equal(projectID)
expect(res.body.status).to.equal('running')
// Give the job time to finish
setTimeout(() => {
done()
}, 3500)
})
})
it('should be able to get the projects results', function() {
this.retries(3)
return chai
.request(app)
.get(`/projects/${projectID}?json=true`)
.set('cookie', sessionID)
.then(res => {
expect(res).to.have.status(200)
expect(res.body).to.be.an('object')
expect(['failed', 'queued', 'running']).to.not.include(res.body.status)
expect(res.body.status).to.equal('done')
expect(res.body.logfiles).to.be.an('array')
})
})
})
context('Alignment module', function(done) {
it('should be able to create and start a new alignment project', function() {
this.timeout(5000)
chai
.request(app)
.post('/projects/upload')
.set('cookie', sessionID)
.field('projectname', 'Test Project2')
.field('projecttype', 'align')
.field('settings[numCores]', '1')
.field('settings[mismatches]', '0')
.field('settings[preTrim]', '0')
.field('settings[postTrim]', '0')
.field('settings[writeUnaligned]', true)
.field('settings[reference]', 'testReference.fasta')
.field('status', 'queued')
.attach('files', './public/test/test.fastq', 'test.fastq')
.attach('files', './public/test/test2.fastq', 'test2.fastq')
.then(res => {
expect(res).to.have.status(200)
expect(res.body).to.be.an('object')
expect(res.body).to.have.property('_id')
projectID = res.body._id
expect(res.body.projecttype).to.equal('align')
expect(res.body.files).to.be.an('array')
expect(res.body.files).to.have.length.greaterThan(0)
return chai
.request(app)
.put(`/projects/${projectID}/start`)
.set('cookie', sessionID)
.then(res => {
expect(res).to.have.status(200)
expect(res.body.status).to.equal('running')
// Give the job time to finish
setTimeout(() => {
done()
}, 3500);
})
})
})
it('should be able to recieve alignment results', function() {
this.retries(3)
return chai
.request(app)
.get(`/projects/${projectID}?json=true`)
.set('cookie', sessionID)
.then(res => {
expect(res).to.have.status(200)
expect(res.body._id).to.equal(projectID)
expect(['failed', 'queued', 'running']).to.not.include(res.body.status)
expect(res.body.logfiles).to.be.an('array')
})
})
})
after(function(done) {
this.timeout(5000)
setTimeout(() => {
chai
.request(app)
.post('/users/remove?json=true')
.set('cookie', sessionID)
.then(res => {
assert.hasAllKeys(res.body, ['_id', 'email', 'password', 'settings', '__v', 'role'])
})
.then(done, done)
}, 3500)
})
})
after(() => server.disconnect())
})