Upgrade all dependencies and migrate to Vitest 4

package.json

@@ -14,6 +14,10 @@
   "author": "Louis Lambeau <louis.lambeau@enspirit.be>",
   "license": "ISC",
   "description": "A replacement for our Makefile-for-monorepos",
+  "repository": {
+    "type": "git",
+    "url": "https://github.com/enspirit/emb"
+  },
   "bin": {
     "emb": "./bin/run.js"
   },
@@ -43,13 +47,13 @@
     "version": "oclif readme && git add README.md"
   },
   "dependencies": {
-    "@fastify/deepmerge": "^3.1.0",
+    "@fastify/deepmerge": "^3.2.0",
     "@kubernetes/client-node": "1.4.0",
-    "@listr2/manager": "^3.0.5",
+    "@listr2/manager": "^4.0.0",
     "@oclif/core": "^4.8.0",
-    "@oclif/plugin-autocomplete": "^3.2.39",
-    "@oclif/plugin-help": "^6.2.36",
-    "@oclif/plugin-update": "^4.7.16",
+    "@oclif/plugin-autocomplete": "^3.2.40",
+    "@oclif/plugin-help": "^6.2.37",
+    "@oclif/plugin-update": "^4.7.17",
     "@oclif/table": "^0.5.1",
     "ajv": "^8.17.1",
     "ansi-escapes": "^7.2.0",
@@ -60,48 +64,48 @@
     "execa": "^9.6.1",
     "fast-json-patch": "^3.1.1",
     "fdir": "^6.5.0",
-    "find-up": "^7.0.0",
-    "glob": "^11.1.0",
+    "find-up": "^8.0.0",
+    "glob": "^13.0.0",
     "graphlib": "^2.1.8",
-    "@inquirer/prompts": "^7.10.1",
-    "@listr2/prompt-adapter-inquirer": "^3.0.5",
-    "listr2": "^9.0.5",
+    "@inquirer/prompts": "^8.2.0",
+    "@listr2/prompt-adapter-inquirer": "^4.0.0",
+    "listr2": "^10.0.0",
     "luxon": "^3.7.2",
-    "open": "^10.1.0",
-    "openid-client": "^6.4.3",
-    "protobufjs": "^7.5.4",
+    "open": "^11.0.0",
+    "openid-client": "^6.8.1",
+    "protobufjs": "^8.0.0",
     "p-map": "^7.0.4",
     "simple-git": "^3.30.0",
     "yaml": "^2.8.2",
     "zod": "^4.3.5"
   },
   "devDependencies": {
-    "@eslint/eslintrc": "^3.3.1",
-    "@eslint/js": "^9.34.0",
+    "@eslint/eslintrc": "^3.3.3",
+    "@eslint/js": "^9.39.2",
     "@oclif/prettier-config": "^0.2.1",
     "@oclif/test": "^4",
     "@tsconfig/node20": "^20.1.8",
-    "@types/dockerode": "^3.3.47",
+    "@types/dockerode": "^4.0.1",
     "@types/graphlib": "^2.1.12",
     "@types/luxon": "^3.7.1",
-    "@types/node": "^24.10.8",
-    "@typescript-eslint/eslint-plugin": "^8.41.0",
-    "@typescript-eslint/parser": "^8.41.0",
+    "@types/node": "^25.0.10",
+    "@typescript-eslint/eslint-plugin": "^8.53.1",
+    "@typescript-eslint/parser": "^8.53.1",
     "eslint": "^9.39.2",
     "eslint-config-oclif": "^6",
     "eslint-config-prettier": "^10.1.8",
-    "eslint-plugin-prettier": "^5.5.4",
+    "eslint-plugin-prettier": "^5.5.5",
     "json-schema-to-typescript": "^15.0.4",
     "oclif": "^4",
-    "prettier": "^3.7.4",
+    "prettier": "^3.8.1",
     "rimraf": "^6.1.2",
     "shx": "^0.4.0",
     "ts-node": "^10.9.2",
     "tsc-alias": "^1.8.16",
     "tsx": "^4.21.0",
     "typescript": "^5.9.3",
-    "vitest": "^3.2.4",
-    "vite-tsconfig-paths": "^5.1.4"
+    "vitest": "^4.0.17",
+    "vite-tsconfig-paths": "^6.0.4"
   },
   "engines": {
     "node": ">=20.0.0"
@@ -154,5 +158,5 @@
       }
     }
   },
-  "packageManager": "pnpm@10.28.0"
+  "packageManager": "pnpm@10.28.1"
 }

tests/unit/config/syntax/components.spec.ts

@@ -3,7 +3,7 @@ import { beforeEach, describe, expect, test, vi } from 'vitest';
 import { validateUserConfig } from '@/config';
 
 describe('Config syntax - Components', () => {
-  let vConfig: ReturnType<typeof vi.fn>;
+  let vConfig: ReturnType<typeof vi.fn<typeof validateUserConfig>>;
 
   beforeEach(() => {
     vConfig = vi.fn(validateUserConfig);

tests/unit/config/syntax/defaults.spec.ts

@@ -3,7 +3,7 @@ import { beforeEach, describe, expect, test, vi } from 'vitest';
 import { validateUserConfig } from '@/config';
 
 describe('Config syntax - Defaults', () => {
-  let vConfig: ReturnType<typeof vi.fn>;
+  let vConfig: ReturnType<typeof vi.fn<typeof validateUserConfig>>;
 
   beforeEach(() => {
     vConfig = vi.fn(validateUserConfig);

tests/unit/config/syntax/flavors.spec.ts

@@ -3,7 +3,7 @@ import { beforeEach, describe, expect, test, vi } from 'vitest';
 import { validateUserConfig } from '@/config';
 
 describe('Config syntax - Flavors', () => {
-  let vConfig: ReturnType<typeof vi.fn>;
+  let vConfig: ReturnType<typeof vi.fn<typeof validateUserConfig>>;
 
   beforeEach(() => {
     vConfig = vi.fn(validateUserConfig);

tests/unit/config/syntax/plugins.spec.ts

@@ -3,7 +3,7 @@ import { beforeEach, describe, expect, test, vi } from 'vitest';
 import { validateUserConfig } from '@/config';
 
 describe('Config syntax - Plugins', () => {
-  let vConfig: ReturnType<typeof vi.fn>;
+  let vConfig: ReturnType<typeof vi.fn<typeof validateUserConfig>>;
 
   beforeEach(() => {
     vConfig = vi.fn(validateUserConfig);

tests/unit/config/syntax/project.spec.ts

@@ -3,7 +3,7 @@ import { beforeEach, describe, expect, test, vi } from 'vitest';
 import { validateUserConfig } from '@/config';
 
 describe('Config syntax - Project', () => {
-  let vConfig: ReturnType<typeof vi.fn>;
+  let vConfig: ReturnType<typeof vi.fn<typeof validateUserConfig>>;
 
   beforeEach(() => {
     vConfig = vi.fn(validateUserConfig);

tests/unit/docker/operations/containers/ContainerExecOperation.spec.ts

@@ -1,10 +1,10 @@
 import { EmbContext, getContext } from '@';
 import { EventEmitter } from 'node:events';
 import { PassThrough } from 'node:stream';
+import { createTestContext } from 'tests/setup/set.context.js';
 import { beforeEach, describe, expect, Mock, test, vi } from 'vitest';
 
 import { ContainerExecOperation } from '@/docker';
-import { createTestContext } from 'tests/setup/set.context.js';
 
 describe('Docker / ContainerExecOperation', () => {
   let context: EmbContext;

tests/unit/docker/operations/containers/ListContainersOperation.spec.ts

@@ -1,8 +1,8 @@
 import { EmbContext, getContext } from '@';
+import { createTestContext } from 'tests/setup/set.context.js';
 import { beforeEach, describe, expect, Mock, test } from 'vitest';
 
 import { ListContainersOperation } from '@/docker';
-import { createTestContext } from 'tests/setup/set.context.js';
 
 describe('Docker / ListContainersOperation', () => {
   let context: EmbContext;

tests/unit/docker/operations/containers/PruneContainersOperation.spec.ts

@@ -1,8 +1,8 @@
 import { EmbContext, getContext } from '@';
+import { createTestContext } from 'tests/setup/set.context.js';
 import { beforeEach, describe, expect, Mock, test } from 'vitest';
 
 import { PruneContainersOperation } from '@/docker';
-import { createTestContext } from 'tests/setup/set.context.js';
 
 describe('Docker / PruneContainersOperation', () => {
   let context: EmbContext;

tests/unit/monorepo/operations/components/GetComponentContainerOperation.spec.ts

@@ -1,9 +1,9 @@
 import { EmbContext, getContext } from '@';
 import { ContainerInfo } from 'dockerode';
+import { createTestContext } from 'tests/setup/set.context.js';
 import { beforeEach, describe, expect, Mock, test } from 'vitest';
 
 import { GetComponentContainerOperation } from '../../../../../src/monorepo/operations/components/GetComponentContainerOperation.js';
-import { createTestContext } from 'tests/setup/set.context.js';
 
 describe('Monorepo / Operations / GetComponentContainerOperation', () => {
   let context: EmbContext;

vitest.config.ts

@@ -0,0 +1,95 @@
+/**
+ * Vitest Configuration
+ *
+ * Updated for Vitest 4.x using the new `test.projects` API.
+ */
+import { dirname, resolve } from 'node:path';
+import { fileURLToPath } from 'node:url';
+import tsconfigPaths from 'vite-tsconfig-paths';
+import { defineConfig } from 'vitest/config';
+
+const __filename = fileURLToPath(import.meta.url);
+const __dirname = dirname(__filename);
+
+const sharedConfig = {
+  plugins: [
+    tsconfigPaths({
+      // Ignore errors from website/tsconfig.json which extends astro/tsconfigs/strict
+      // (Astro is not installed in the main project, only in the website workspace)
+      ignoreConfigErrors: true,
+    }),
+  ],
+  resolve: {
+    alias: {
+      '@/': resolve(__dirname, './src/'),
+      '@/cli': resolve(__dirname, './src/cli/index.js'),
+      '@/config': resolve(__dirname, './src/config/index.js'),
+      '@/docker': resolve(__dirname, './src/docker/index.js'),
+      '@/monorepo': resolve(__dirname, './src/monorepo/index.js'),
+      '@/operations': resolve(__dirname, './src/operations/index.js'),
+      '@/prerequisites': resolve(__dirname, './src/prerequisites/index.js'),
+      '@/utils': resolve(__dirname, './src/utils/index.js'),
+    },
+    extensions: ['.js', '.ts', '.json'],
+  },
+};
+
+export default defineConfig({
+  test: {
+    projects: [
+      {
+        // Unit tests with mocked context
+        ...sharedConfig,
+        test: {
+          name: 'unit',
+          include: ['tests/unit/**/*.spec.ts'],
+          disableConsoleIntercept: true,
+          setupFiles: ['tsx/esm', './tests/setup/set.context.ts'],
+        },
+      },
+      {
+        // Feature-based integration tests using example monorepos (no Docker)
+        ...sharedConfig,
+        test: {
+          name: 'integration-features',
+          include: ['tests/integration/features/**/*.spec.ts'],
+          exclude: ['tests/integration/features/**/*.docker.spec.ts'],
+          disableConsoleIntercept: true,
+          setupFiles: ['tsx/esm'],
+          // Longer timeout for CI environments which may be slower
+          testTimeout: 30_000,
+        },
+      },
+      {
+        // Feature-based integration tests that require real Docker
+        ...sharedConfig,
+        test: {
+          name: 'integration-features-docker',
+          include: ['tests/integration/features/**/*.docker.spec.ts'],
+          disableConsoleIntercept: true,
+          // Sequential execution to avoid Docker conflicts
+          pool: 'forks',
+          singleFork: true,
+          // Longer timeout for Docker operations
+          testTimeout: 120_000,
+        },
+      },
+      {
+        // Vault secrets integration tests
+        ...sharedConfig,
+        test: {
+          name: 'integration-secrets',
+          include: ['tests/integration/secrets/**/*.spec.ts'],
+          disableConsoleIntercept: true,
+          setupFiles: ['tsx/esm'],
+          globalSetup: './tests/integration/secrets/global-setup.ts',
+          // Sequential execution to avoid conflicts
+          pool: 'forks',
+          singleFork: true,
+          // Longer timeout for container operations
+          testTimeout: 60_000,
+        },
+      },
+    ],
+  },
+});