[skip ci] transferred api tests

deploy/api-test/datasets/mouse.2015.spec.js

+const atlas = 'Allen Mouse Common Coordinate Framework v3 2015'
+const referenceSpace = 'Allen Mouse Common Coordinate Framework v3'
+const wildCard = 'both (Waxholm/ Allen)'
+
+const { getAllenWaxholmTest } = require('./ratMouse.util')
+
+const ATLAS_URL = process.env.ATLAS_URL || 'https://interactive-viewer.apps.hbp.eu/'
+
+getAllenWaxholmTest({ 
+  atlas,
+  referenceSpace,
+  wildCard
+})(ATLAS_URL)
\ No newline at end of file

deploy/api-test/datasets/mouse.2017.spec.js

+const atlas = 'Allen Mouse Common Coordinate Framework v3 2017'
+const referenceSpace = 'Allen Mouse Common Coordinate Framework v3'
+const wildCard = 'both (Waxholm/ Allen)'
+
+const { getAllenWaxholmTest } = require('./ratMouse.util')
+
+const ATLAS_URL = process.env.ATLAS_URL || 'https://interactive-viewer.apps.hbp.eu/'
+
+getAllenWaxholmTest({ 
+  atlas,
+  referenceSpace,
+  wildCard
+})(ATLAS_URL)
\ No newline at end of file

deploy/api-test/datasets/rat.v1.spec.js

+const atlas = 'Waxholm Space rat brain atlas v1.01'
+const referenceSpace = 'Waxholm Space rat brain MRI/DTI'
+const wildCard = 'both (Waxholm/ Allen)'
+
+const { getAllenWaxholmTest } = require('./ratMouse.util')
+
+const ATLAS_URL = process.env.ATLAS_URL || 'https://interactive-viewer.apps.hbp.eu/'
+
+getAllenWaxholmTest({ 
+  atlas,
+  referenceSpace,
+  wildCard
+})(ATLAS_URL)
\ No newline at end of file

deploy/api-test/datasets/rat.v2.spec.js

+const atlas = 'Waxholm Space rat brain atlas v2'
+const referenceSpace = 'Waxholm Space rat brain MRI/DTI'
+const wildCard = 'both (Waxholm/ Allen)'
+
+const { getAllenWaxholmTest } = require('./ratMouse.util')
+
+const ATLAS_URL = process.env.ATLAS_URL || 'https://interactive-viewer.apps.hbp.eu/'
+
+getAllenWaxholmTest({ 
+  atlas,
+  referenceSpace,
+  wildCard
+})(ATLAS_URL)
\ No newline at end of file

deploy/api-test/datasets/rat.v3.spec.js

+const atlas = 'Waxholm Space rat brain atlas v3'
+const referenceSpace = 'Waxholm Space rat brain MRI/DTI'
+const wildCard = 'both (Waxholm/ Allen)'
+
+const { getAllenWaxholmTest } = require('./ratMouse.util')
+
+const ATLAS_URL = process.env.ATLAS_URL || 'https://interactive-viewer.apps.hbp.eu/'
+
+getAllenWaxholmTest({ 
+  atlas,
+  referenceSpace,
+  wildCard
+})(ATLAS_URL)
\ No newline at end of file

deploy/api-test/datasets/ratMouse.util.js

+const { setupAuth, getInfo, getGetRowsFn } = require('./util')
+
+const { GoogleSpreadsheet } = require('google-spreadsheet')
+const WAXHOLM_RAT_GOOGLE_SHEET_ID = process.env.WAXHOLM_RAT_GOOGLE_SHEET_ID
+if (!WAXHOLM_RAT_GOOGLE_SHEET_ID) throw new Error(`env var WAXHOLM_RAT_GOOGLE_SHEET_ID is undefined`)
+
+const doc = new GoogleSpreadsheet(WAXHOLM_RAT_GOOGLE_SHEET_ID)
+
+const { expect } = require('chai')
+const got = require('got')
+const { URL } = require('url')
+
+const getWaxholmAllenDatasetsPr = new Promise( async (rs, rj) => {
+  await setupAuth(doc)
+  const worksheet = doc.sheetsByIndex.find(({ title }) => title === 'Dataset level')
+  if (!worksheet) rj(`worksheet 'Dataset level' not found!`)
+
+  const rows = await worksheet.getRows({ offset: 1 })
+  const filteredrows = rows.filter(r => r['Public or curated?'] === 'public')
+
+  rs(filteredrows)
+})
+
+const getWaxholmAllenDatasets = () => getWaxholmAllenDatasetsPr
+
+const getAllenWaxholmTest = ({ 
+  atlas,
+  referenceSpace,
+  wildCard
+ }) => ATLAS_URL => describe(referenceSpace, () => {
+   let spreadsheetExpectedDatasets = []
+   before(async () => {
+     spreadsheetExpectedDatasets = (await getWaxholmAllenDatasets())
+       .filter(r => r['Reference Atlas'] === atlas || r['Reference Atlas'] === wildCard)
+       .map(r => r['Dataset name'])
+   })
+   describe(atlas, () => {
+     describe(`testing ${ATLAS_URL}`, () => {
+ 
+       let fetchedDatasets = []
+       before(async () => {
+         const getUrl = new URL(`${ATLAS_URL.replace(/\/$/, '')}/datasets/templateNameParcellationName/${encodeURIComponent(referenceSpace)}/${encodeURIComponent(atlas)}`)
+         const resp = await got(getUrl)
+         expect(resp.statusCode).to.equal(200)
+         fetchedDatasets = JSON.parse(resp.body).map(({ name }) => name)
+       })
+ 
+       it(`number of fetched === number of expected`, () => {
+         expect(fetchedDatasets.length).to.eq(spreadsheetExpectedDatasets.length)
+       })
+ 
+       it('expect fetched === expected. + = expected, but not fetched; - = fetched, but not expected', () => {
+         expect(
+           fetchedDatasets.sort()
+         ).to.have.members(
+           spreadsheetExpectedDatasets.sort()
+         )
+       })
+     })
+   })
+ })
+
+module.exports = {
+  getWaxholmAllenDatasets,
+  getAllenWaxholmTest
+}

deploy/api-test/datasets/util.js

+
+const fs = require('fs')
+const SERVICE_ACCOUNT_CRED = JSON.parse(
+  process.env.SERVICE_ACCOUNT_CRED || 
+  (process.env.SERVICE_ACCOUNT_CRED_PATH && fs.readFileSync(process.env.SERVICE_ACCOUNT_CRED_PATH, 'utf-8')) ||
+  '{}')
+
+const setupAuth = async doc => {
+  await doc.useServiceAccountAuth(SERVICE_ACCOUNT_CRED)
+  await doc.loadInfo()
+}
+
+module.exports = {
+  setupAuth
+}
\ No newline at end of file

deploy/datasets/index.js

@@ -121,6 +121,8 @@ fs.readdir(RECEPTOR_PATH, (err, files) => {
   files.forEach(file => previewFileMap.set(`res/image/receptor/${file}`, path.join(RECEPTOR_PATH, file)))
 })
 
+
+// TODO deprecated
 datasetsRouter.get('/previewFile', cacheMaxAge24Hr, (req, res) => {
   const { file } = req.query
   const filePath = previewFileMap.get(file)
@@ -149,6 +151,7 @@ const checkKgQuery = (req, res, next) => {
   else return next()
 }
 
+// TODO deprecated
 datasetsRouter.get('/hasPreview', cacheMaxAge24Hr, async (req, res) => {
   const { datasetName } = req.query
   if (!datasetName || datasetName === '') return res.status(400).send(`datasetName as query param is required.`)

deploy/package.json

@@ -8,7 +8,8 @@
     "test": "npm run testEnv && npm run testNoEnv",
     "testEnv": "node -r dotenv/config ./node_modules/.bin/mocha ./test/mocha.test.js --timeout 60000",
     "testNoEnv": "node ./node_modules/.bin/mocha ./test/mocha.test.noenv.js --timeout 60000",
-    "mocha": "mocha"
+    "mocha": "mocha",
+    "mocha-env": "node -r dotenv/config ./node_modules/.bin/mocha"
   },
   "keywords": [],
   "author": "",
@@ -31,6 +32,8 @@
     "chai-as-promised": "^7.1.1",
     "cors": "^2.8.5",
     "dotenv": "^6.2.0",
+    "google-spreadsheet": "^3.0.8",
+    "got": "^10.5.5",
     "mocha": "^6.1.4",
     "sinon": "^8.0.2"
   }