Fix Jest 30 compatibility and standardize on pnpm. (#259)

Add jest-environment-jsdom, update custom transformers for Jest 28+, move security overrides to pnpm-workspace.yaml, and remove leftover bun references from hooks and docs.

Author: igoroctaviano

.gitignore

@@ -54,6 +54,10 @@ typings/
 # Yarn Integrity file
 .yarn-integrity
 
+# Bun lockfile
+bun.lock
+bun.lockb
+
 # dotenv environment variables file
 .env
 

.husky/pre-commit

@@ -1,3 +1,3 @@
 #!/usr/bin/env sh
 # Block commit if lint or format fails (biome check runs both)
-bun run lint
+pnpm run lint

docs/index.html

@@ -131,8 +131,8 @@ <h2>Citation</h2>
 }
 </code></pre>
 <h2>Installation</h2>
-<p>Install the <a href="https://www.npmjs.com/package/dicom-microscopy-viewer">dicom-microscopy-viewer</a> package using the <code>bun</code> package manager:</p>
-<pre class="prettyprint source lang-None"><code>bun add dicom-microscopy-viewer
+<p>Install the <a href="https://www.npmjs.com/package/dicom-microscopy-viewer">dicom-microscopy-viewer</a> package using your preferred package manager:</p>
+<pre class="prettyprint source lang-None"><code>pnpm add dicom-microscopy-viewer
 </code></pre>
 <h2>Development &amp; Testing</h2>
 <p>We use <a href="https://babeljs.io/">Babel</a> to compile (transpile), <a href="https://webpack.js.org/">webpack</a> to bundle, and <a href="https://github.com/facebook/jest">Jest</a> to test JavaScript code.</p>
@@ -141,14 +141,14 @@ <h2>Development &amp; Testing</h2>
 cd dicom-microscopy-viewer
 </code></pre>
 <p>Install dependencies and build the package:</p>
-<pre class="prettyprint source lang-None"><code>bun install
-bun run build
+<pre class="prettyprint source lang-None"><code>pnpm install
+pnpm run build
 </code></pre>
 <p>Run tests:</p>
-<pre class="prettyprint source lang-None"><code>bun run test
+<pre class="prettyprint source lang-None"><code>pnpm run test
 </code></pre>
 <p>Build the API documentation:</p>
-<pre class="prettyprint source lang-None"><code>bun run generateDocs
+<pre class="prettyprint source lang-None"><code>pnpm run generateDocs
 </code></pre>
 <h2>Support</h2>
 <p>The developers gratefully acknowledge their reseach support:</p>

package.json

@@ -32,7 +32,7 @@
     "@babel/preset-env": "^7.16",
     "@babel/runtime-corejs3": "^7.15.4",
     "@biomejs/biome": "2.3.13",
-    "babel-jest": "27.5",
+    "babel-jest": "^30.4",
     "babel-loader": "^8.2.3",
     "babel-plugin-transform-import-meta": "^2.3.3",
     "chai": "^6.2.2",
@@ -42,6 +42,7 @@
     "css-loader": "^6.7.1",
     "jest": "^30.4",
     "jest-canvas-mock": "^2.3",
+    "jest-environment-jsdom": "^30.4",
     "jsdoc": "^4.0.2",
     "open-cli": "^7.0.1",
     "terser-webpack-plugin": "^5.2.2",
@@ -82,13 +83,5 @@
     "webpack:dynamic-import:watch": "webpack --progress --watch --config ./config/webpack/webpack-dynamic-import",
     "webpack:watch": "webpack --progress --watch  --config ./config/webpack/webpack-bundle",
     "prepare": "husky"
-  },
-  "pnpm": {
-    "overrides": {
-      "braces": "3.0.3",
-      "form-data": "3.0.5",
-      "minimatch": "3.1.5",
-      "serialize-javascript": "7.0.5"
-    }
   }
 }