Merge branch 'v0.8.5' into 'master'

V0.8.5

See merge request !141

docs/api_tutorial.md

@@ -94,6 +94,14 @@ consist of Si, O, bulk material simulations of cubic systems (currently ~100 ent
 curl "http://nomad-lab.eu/prod/rae/api/raw/query?only_atoms=Si&only_atoms=O&system=bulk&crystal_system=cubic" -o download.zip
 ```
 
+Here are a few more examples for downloading the raw data of based on DOI or dataset.
+You will have to encode non URL safe characters in potential dataset names (e.g. with a service like [www.urlencoder.org](https://www.urlencoder.org/)):
+
+```
+curl "http://nomad-lab.eu/prod/rae/api/raw/query?doi=10.17172/NOMAD/2020.03.18-1" -o download.zip
+curl "http://nomad-lab.eu/prod/rae/api/raw/query?dataset=Full%20ahnarmonic%20stAViC%20approach%3A%20Silicon%20and%20SrTiO3" -o download.zip
+```
+
 In a similar way you can see the archive of an entry:
 
 ```

gui/.eslintrc.js

@@ -14,9 +14,14 @@ module.exports = {
         "fetch": false,
         "browser": true
     },
+    "plugins": [
+        "react", "react-hooks"
+    ],
     "rules": {
         "space-before-function-paren": ["error", "never"],
-        "camelcase": [0]
+        "camelcase": [0],
+        "react-hooks/rules-of-hooks": "error",
+        "react-hooks/exhaustive-deps": "warn"
     },
     "settings": {
         "react": {

gui/package.json

@@ -4,16 +4,13 @@
   "commit": "e98694e",
   "private": true,
   "dependencies": {
-    "@testing-library/jest-dom": "^4.2.4",
-    "@testing-library/react": "^9.3.2",
-    "@testing-library/user-event": "^7.1.2",
-    "react": "^16.13.1",
-    "react-dom": "^16.13.1",
-    "react-scripts": "3.4.1",
     "@material-ui/core": "^4.0.0",
     "@material-ui/icons": "^4.0.0",
     "@material-ui/lab": "^4.0.0-alpha.49",
     "@navjobs/upload": "^3.1.3",
+    "@testing-library/jest-dom": "^4.2.4",
+    "@testing-library/react": "^9.3.2",
+    "@testing-library/user-event": "^7.1.2",
     "autosuggest-highlight": "^3.1.1",
     "base-64": "^0.1.0",
     "chroma-js": "^2.0.3",
@@ -32,16 +29,19 @@
     "pace-js": "^1.0.2",
     "piwik-react-router": "^0.12.1",
     "qs": "^6.8.0",
+    "react": "^16.13.1",
     "react-app-polyfill": "^1.0.1",
     "react-autosuggest": "^9.4.3",
     "react-cookie": "^3.0.8",
     "react-copy-to-clipboard": "^5.0.1",
+    "react-dom": "^16.13.1",
     "react-dropzone": "^5.0.1",
     "react-highlight": "^0.12.0",
     "react-infinite-scroller": "^1.2.4",
     "react-json-view": "^1.19.1",
     "react-keycloak": "^6.1.0",
     "react-router-dom": "^5.1.2",
+    "react-scripts": "3.4.1",
     "react-swipeable-views": "^0.13.0",
     "recompose": "^0.28.2",
     "swagger-client": "^3.8.22",
@@ -65,7 +65,7 @@
     "eslint-plugin-import": "^2.14.0",
     "eslint-plugin-node": "^8.0.1",
     "eslint-plugin-promise": "^3.7.0",
-    "eslint-plugin-react": "^7.11.1",
+    "eslint-plugin-react": "^7.20.5",
     "eslint-plugin-standard": "^3.1.0",
     "react-docgen": "^5.3.0",
     "serve": "^10.0.0"

gui/src/components/About.js

@@ -228,7 +228,7 @@ export default function About() {
         <Markdown>{`
         ### Getting Help
         If you encounter any difficulties, please write to
-        [webmaster@nomad-coe.eu](mailto:webmaster@nomad-coe.eu). If you think
+        [support@nomad-lab.eu](mailto:support@nomad-lab.eu). If you think
         that this web-page is not working as expected, or if you want to start a discussion
         about possible features, feel free to open an issue on our [issue tracking
         system](https://gitlab.mpcdf.mpg.de/nomad-lab/nomad-FAIR/issues).

gui/src/components/App.js

-import React, { useEffect, useState, useContext, useCallback, useRef } from 'react'
+import React, { useEffect, useState, useContext, useCallback, useRef, useMemo } from 'react'
 import PropTypes from 'prop-types'
 import { compose } from 'recompose'
 import classNames from 'classnames'
@@ -154,7 +154,10 @@ function Consent() {
   const [cookies, setCookie] = useCookies()
   const [accepted, setAccepted] = useState(cookies['terms-accepted'])
   const [optOut, setOptOut] = useState(cookies['tracking-enabled'] === 'false')
-  const forever = new Date(2147483647 * 1000)
+  const cookieOptions = useMemo(() => ({
+    expires: new Date(2147483647 * 1000),
+    path: '/' + guiBase.split('/').slice(1).join('/')
+  }), [])
 
   useEffect(() => {
     if (!optOut) {
@@ -164,15 +167,23 @@ function Consent() {
     }
   })
 
+  // Write again to push forwards Safari's hard-coded 7 days ITP window
+  useEffect(() => {
+    setCookie('terms-accepted', cookies['terms-accepted'], cookieOptions)
+    setCookie('tracking-enabled', cookies['tracking-enabled'], cookieOptions)
+  },
+  // eslint-disable-next-line react-hooks/exhaustive-deps
+  [])
+
   const handleClosed = accepted => {
     if (accepted) {
-      setCookie('terms-accepted', true, {expires: forever})
-      setCookie('tracking-enabled', !optOut, {expires: forever})
+      setCookie('terms-accepted', true, cookieOptions)
+      setCookie('tracking-enabled', !optOut, cookieOptions)
       setAccepted(true)
     }
   }
   const handleOpen = () => {
-    setCookie('terms-accepted', false)
+    setCookie('terms-accepted', false, cookieOptions)
     setAccepted(false)
   }
 

gui/src/config.js

@@ -15,7 +15,7 @@ export const keycloakClientId = window.nomadEnv.keycloakClientId
 export const debug = window.nomadEnv.debug || false
 export const matomoEnabled = window.nomadEnv.matomoEnabled
 export const encyclopediaEnabled = window.nomadEnv.encyclopediaEnabled
-export const email = 'webmaster@nomad-coe.eu'
+export const email = 'support@nomad-lab.eu'
 export const maxLogsToShow = 50
 
 export const consent = `

gui/yarn.lock

@@ -2251,6 +2251,15 @@ array.prototype.flat@^1.2.1:
     define-properties "^1.1.3"
     es-abstract "^1.17.0-next.1"
+array.prototype.flatmap@^1.2.3:
+  version "1.2.3"
+  resolved "https://registry.yarnpkg.com/array.prototype.flatmap/-/array.prototype.flatmap-1.2.3.tgz#1c13f84a178566042dd63de4414440db9222e443"
+  integrity sha512-OOEk+lkePcg+ODXIpvuU9PAryCikCJyo7GlDG1upleEpQRx6mzL9puEBkozQ5iAx20KV0l3DbyQwqciJtqe5Pg==
+  dependencies:
+    define-properties "^1.1.3"
+    es-abstract "^1.17.0-next.1"
+    function-bind "^1.1.1"
+
 arrify@^1.0.1:
   version "1.0.1"
   resolved "https://registry.yarnpkg.com/arrify/-/arrify-1.0.1.tgz#898508da2226f380df904728456849c1501a4b0d"
@@ -4808,7 +4817,7 @@ eslint-plugin-react-hooks@^1.6.1:
   resolved "https://registry.yarnpkg.com/eslint-plugin-react-hooks/-/eslint-plugin-react-hooks-1.7.0.tgz#6210b6d5a37205f0b92858f895a4e827020a7d04"
   integrity sha512-iXTCFcOmlWvw4+TOE8CLWj6yX1GwzT0Y6cUfHHZqWnSk144VmVIRcVGtUAzrLES7C798lmvnt02C7rxaOX1HNA==
-eslint-plugin-react@7.19.0, eslint-plugin-react@^7.11.1:
+eslint-plugin-react@7.19.0:
   version "7.19.0"
   resolved "https://registry.yarnpkg.com/eslint-plugin-react/-/eslint-plugin-react-7.19.0.tgz#6d08f9673628aa69c5559d33489e855d83551666"
   integrity sha512-SPT8j72CGuAP+JFbT0sJHOB80TX/pu44gQ4vXH/cq+hQTiY2PuZ6IHkqXJV6x1b28GDdo1lbInjKUrrdUf0LOQ==
@@ -4826,6 +4835,23 @@ eslint-plugin-react@7.19.0, eslint-plugin-react@^7.11.1:
     string.prototype.matchall "^4.0.2"
     xregexp "^4.3.0"
+eslint-plugin-react@^7.20.5:
+  version "7.20.5"
+  resolved "https://registry.yarnpkg.com/eslint-plugin-react/-/eslint-plugin-react-7.20.5.tgz#29480f3071f64a04b2c3d99d9b460ce0f76fb857"
+  integrity sha512-ajbJfHuFnpVNJjhyrfq+pH1C0gLc2y94OiCbAXT5O0J0YCKaFEHDV8+3+mDOr+w8WguRX+vSs1bM2BDG0VLvCw==
+  dependencies:
+    array-includes "^3.1.1"
+    array.prototype.flatmap "^1.2.3"
+    doctrine "^2.1.0"
+    has "^1.0.3"
+    jsx-ast-utils "^2.4.1"
+    object.entries "^1.1.2"
+    object.fromentries "^2.0.2"
+    object.values "^1.1.1"
+    prop-types "^15.7.2"
+    resolve "^1.17.0"
+    string.prototype.matchall "^4.0.2"
+
 eslint-plugin-standard@^3.1.0:
   version "3.1.0"
   resolved "https://registry.yarnpkg.com/eslint-plugin-standard/-/eslint-plugin-standard-3.1.0.tgz#2a9e21259ba4c47c02d53b2d0c9135d4b1022d47"
@@ -7352,6 +7378,14 @@ jsx-ast-utils@^2.2.1, jsx-ast-utils@^2.2.3:
     array-includes "^3.0.3"
     object.assign "^4.1.0"
+jsx-ast-utils@^2.4.1:
+  version "2.4.1"
+  resolved "https://registry.yarnpkg.com/jsx-ast-utils/-/jsx-ast-utils-2.4.1.tgz#1114a4c1209481db06c690c2b4f488cc665f657e"
+  integrity sha512-z1xSldJ6imESSzOjd3NNkieVJKRlKYSOtMG8SFyCj2FIrvSaSuli/WjpBkEzCBoR9bYYYFgqJw61Xhu7Lcgk+w==
+  dependencies:
+    array-includes "^3.1.1"
+    object.assign "^4.1.0"
+
 keycloak-js@^6.0.0:
   version "6.0.1"
   resolved "https://registry.yarnpkg.com/keycloak-js/-/keycloak-js-6.0.1.tgz#329a5e77210dfc4a7d4acf96f95dd0132455bea3"
@@ -8274,6 +8308,15 @@ object.entries@^1.1.0, object.entries@^1.1.1:
     function-bind "^1.1.1"
     has "^1.0.3"
+object.entries@^1.1.2:
+  version "1.1.2"
+  resolved "https://registry.yarnpkg.com/object.entries/-/object.entries-1.1.2.tgz#bc73f00acb6b6bb16c203434b10f9a7e797d3add"
+  integrity sha512-BQdB9qKmb/HyNdMNWVr7O3+z5MUIx3aiegEIJqjMBbBf0YT9RRxTJSim4mzFqtyr7PDAHigq0N9dO0m0tRakQA==
+  dependencies:
+    define-properties "^1.1.3"
+    es-abstract "^1.17.5"
+    has "^1.0.3"
+
 object.fromentries@^2.0.2:
   version "2.0.2"
   resolved "https://registry.yarnpkg.com/object.fromentries/-/object.fromentries-2.0.2.tgz#4a09c9b9bb3843dd0f89acdb517a794d4f355ac9"
@@ -10474,7 +10517,7 @@ resolve@1.15.0:
   dependencies:
     path-parse "^1.0.6"
-resolve@^1.10.0, resolve@^1.12.0, resolve@^1.13.1, resolve@^1.15.1, resolve@^1.3.2, resolve@^1.8.1:
+resolve@^1.10.0, resolve@^1.12.0, resolve@^1.13.1, resolve@^1.15.1, resolve@^1.17.0, resolve@^1.3.2, resolve@^1.8.1:
   version "1.17.0"
   resolved "https://registry.yarnpkg.com/resolve/-/resolve-1.17.0.tgz#b25941b54968231cc2d1bb76a79cb7f2c0bf8444"
   integrity sha512-ic+7JYiV8Vi2yzQGFWOkiZD5Z9z7O2Zhm9XMaTxdJExKasieFCr+yXZ/WmXsckHiKl12ar0y6XiXDx3m4RHn1w==

nomad/config.py

@@ -210,8 +210,8 @@ mail = NomadConfig(
     port=8995,
     user='',
     password='',
-    from_address='webmaster@nomad-coe.eu',
-    cc_address='webmaster@nomad-coe.eu'
+    from_address='support@nomad-lab.eu',
+    cc_address='support@nomad-lab.eu'
 )
 
 normalize = NomadConfig(

ops/containers/keycloak/fairdi_nomad_prod.json

@@ -1192,8 +1192,8 @@
     "auth": "",
     "port": "25",
     "host": "mailrelay.mpcdf.mpg.de",
-    "replyTo": "webmaster@nomad-coe.eu",
-    "from": "webmaster@nomad-coe.eu",
+    "replyTo": "support@nomad-lab.eu",
+    "from": "support@nomad-lab.eu",
     "fromDisplayName": "The nomad team",
     "ssl": ""
   },

ops/containers/keycloak/fairdi_nomad_test.json

@@ -1249,8 +1249,8 @@
     "auth": "",
     "port": "25",
     "host": "mailrelay.mpcdf.mpg.de",
-    "replyTo": "webmaster@nomad-coe.eu",
-    "from": "webmaster@nomad-coe.eu",
+    "replyTo": "support@nomad-lab.eu",
+    "from": "support@nomad-lab.eu",
     "fromDisplayName": "The nomad team",
     "ssl": ""
   },

ops/docker-compose/nomad-oasis/README.md

@@ -41,7 +41,7 @@ All docker container are configured via docker-compose an the respective `docker
 Further, we will need to mount some configuration files to configure the NOMAD services within
 their respective containers.
 
-Please [write us](mailto:webmaster@nomad-coe.eu) to register your NOMAD account as an OASIS
+Please [write us](mailto:support@nomad-lab.eu) to register your NOMAD account as an OASIS
 admin and to register your hostname. Please replace the indicated configuration items with
 the right information.
 

ops/helm/nomad/values.yaml

@@ -144,7 +144,7 @@ mail:
   enabled: "false"
   host: 'localhost'
   port: 25
-  from: 'webmaster@nomad-coe.eu'
+  from: 'support@nomad-lab.eu'
 
 client:
   username: admin