[CI] Set up compatibility test workflow

.github/workflows/compatibility-test.yaml

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+name: compatibility tests
+
+on:
+  workflow_dispatch:
+
+jobs:
+  Compatibility-test:
+    runs-on: ubuntu-latest
+
+    steps:
+      - name: Checkout
+        uses: actions/checkout@v4
+
+      - name: Rename files
+        working-directory: ./dev
+        run: |
+          cp template.env .env
+          cp local_nb_nodes.template.json local_nb_nodes.json
+          sed -i 's/latest/nightly/g' .env
+
+      - name: Run docker compose
+        working-directory: ./dev
+        run: |
+          docker compose --profile full_stack up -d
+
+      - name: Set up node env
+        uses: actions/setup-node@v4
+        with:
+          node-version: 20
+
+      - name: Install cypress
+        run: npm install
+
+      - name: wait for graph set up
+        working-directory: ./dev
+        run: |
+          while ! tail -n 0 -f ./DEPLOY.log | grep -q "Finished setting up the Neurobagel graph backend."; do
+            :
+          done
+          echo "Finished setting up the Neurobagel graph backend."
+
+      - name: Run end to end tests
+        uses: cypress-io/github-action@v6
+        with:
+          wait-on: http://localhost:3000
+          component: false
+
+

.gitignore

@@ -158,4 +158,151 @@ local_nb_nodes.json
 cython_debug/
 
 # Keep jetbrains config files out of the repo
-.idea/
+.idea/
+
+
+### Cypress ###
+cypress/results/*
+cypress/reports/*
+cypress/screenshots/*
+cypress/videos/*
+
+### Node ###
+# Logs
+logs
+*.log
+npm-debug.log*
+yarn-debug.log*
+yarn-error.log*
+lerna-debug.log*
+.pnpm-debug.log*
+
+# Diagnostic reports (https://nodejs.org/api/report.html)
+report.[0-9]*.[0-9]*.[0-9]*.[0-9]*.json
+
+# Runtime data
+pids
+*.pid
+*.seed
+*.pid.lock
+
+# Directory for instrumented libs generated by jscoverage/JSCover
+lib-cov
+
+# Coverage directory used by tools like istanbul
+coverage
+*.lcov
+
+# nyc test coverage
+.nyc_output
+
+# Grunt intermediate storage (https://gruntjs.com/creating-plugins#storing-task-files)
+.grunt
+
+# Bower dependency directory (https://bower.io/)
+bower_components
+
+# node-waf configuration
+.lock-wscript
+
+# Compiled binary addons (https://nodejs.org/api/addons.html)
+build/Release
+
+# Dependency directories
+node_modules/
+jspm_packages/
+
+# Snowpack dependency directory (https://snowpack.dev/)
+web_modules/
+
+# TypeScript cache
+*.tsbuildinfo
+
+# Optional npm cache directory
+.npm
+
+# Optional eslint cache
+.eslintcache
+
+# Optional stylelint cache
+.stylelintcache
+
+# Microbundle cache
+.rpt2_cache/
+.rts2_cache_cjs/
+.rts2_cache_es/
+.rts2_cache_umd/
+
+# Optional REPL history
+.node_repl_history
+
+# Output of 'npm pack'
+*.tgz
+
+# Yarn Integrity file
+.yarn-integrity
+
+# dotenv environment variable files
+.env
+.env.development.local
+.env.test.local
+.env.production.local
+.env.local
+
+# parcel-bundler cache (https://parceljs.org/)
+.cache
+.parcel-cache
+
+# Next.js build output
+.next
+out
+
+# Nuxt.js build / generate output
+.nuxt
+dist
+
+# Gatsby files
+.cache/
+# Comment in the public line in if your project uses Gatsby and not Next.js
+# https://nextjs.org/blog/next-9-1#public-directory-support
+# public
+
+# vuepress build output
+.vuepress/dist
+
+# vuepress v2.x temp and cache directory
+.temp
+
+# Docusaurus cache and generated files
+.docusaurus
+
+# Serverless directories
+.serverless/
+
+# FuseBox cache
+.fusebox/
+
+# DynamoDB Local files
+.dynamodb/
+
+# TernJS port file
+.tern-port
+
+# Stores VSCode versions used for testing VSCode extensions
+.vscode-test
+
+# yarn v2
+.yarn/cache
+.yarn/unplugged
+.yarn/build-state.yml
+.yarn/install-state.gz
+.pnp.*
+
+### Node Patch ###
+# Serverless Webpack directories
+.webpack/
+
+# Optional stylelint cache
+
+# SvelteKit build / generate output
+.svelte-kit

cypress.config.js

@@ -0,0 +1,10 @@
+const { defineConfig } = require("cypress");
+
+module.exports = defineConfig({
+  e2e: {
+    experimentalStudio: true,
+    setupNodeEvents(on, config) {
+      // implement node event listeners here
+    },
+  },
+});

cypress/e2e/simple-test.js

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+describe('Full stack e2e', () => {
+  it('Query tool', () => {
+    cy.visit('http://localhost:3000/')
+    cy.get('[data-cy="Neurobagel graph-categorical-field"]').type(
+      'local graph 1{downarrow}{enter}'
+    );
+    cy.get('[data-cy="submit-query-button"]').click();
+    cy.get('[data-cy="result-container"]').contains("from Local graph 1",{matchCase: false});
+  })
+  it('API', () => {
+    cy.request("localhost:8000/query/").as("query");
+    cy.get("@query").should((response) => {
+      expect(response.status).to.eq(200);
+    });
+  });
+  it("Federation API", () => {
+    cy.request("localhost:8000/query/?node=local graph 1").as("query");
+    cy.get("@query").should((response) => {
+      expect(response.status).to.eq(200);
+    });
+  })
+  it("CLI", () => {
+    cy.exec("docker run --rm neurobagel/bagelcli --help").its("stdout").should("contain", "Usage: bagel");
+  });
+})

cypress/support/commands.js

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+// ***********************************************
+// This example commands.js shows you how to
+// create various custom commands and overwrite
+// existing commands.
+//
+// For more comprehensive examples of custom
+// commands please read more here:
+// https://on.cypress.io/custom-commands
+// ***********************************************
+//
+//
+// -- This is a parent command --
+// Cypress.Commands.add('login', (email, password) => { ... })
+//
+//
+// -- This is a child command --
+// Cypress.Commands.add('drag', { prevSubject: 'element'}, (subject, options) => { ... })
+//
+//
+// -- This is a dual command --
+// Cypress.Commands.add('dismiss', { prevSubject: 'optional'}, (subject, options) => { ... })
+//
+//
+// -- This will overwrite an existing command --
+// Cypress.Commands.overwrite('visit', (originalFn, url, options) => { ... })

cypress/support/e2e.js

@@ -0,0 +1,20 @@
+// ***********************************************************
+// This example support/e2e.js is processed and
+// loaded automatically before your test files.
+//
+// This is a great place to put global configuration and
+// behavior that modifies Cypress.
+//
+// You can change the location of this file or turn off
+// automatically serving support files with the
+// 'supportFile' configuration option.
+//
+// You can read more here:
+// https://on.cypress.io/configuration
+// ***********************************************************
+
+// Import commands.js using ES2015 syntax:
+import './commands'
+
+// Alternatively you can use CommonJS syntax:
+// require('./commands')