Deleted the Tokens Section and Implemented the Copy function.

.github/copilot-instructions.md

@@ -0,0 +1,201 @@
+# RERUM API v1 Server
+Always reference these instructions first and fallback to search or bash commands only when you encounter unexpected information that does not match the info here.
+
+RERUM API v1 is a NodeJS web service for interaction with the RERUM digital object repository. It stores JSON-LD objects including Web Annotations, SharedCanvas/IIIF objects, FOAF Agents, and any valid JSON objects. Visit [rerum.io](https://rerum.io) for general information and [store.rerum.io](https://store.rerum.io/) for the hosted public instance.
+
+## Working Effectively
+
+### Prerequisites
+- **CRITICAL**: Node.js version 22.17.1 or higher is required (specified in package.json engines: ">=22.12.0")
+- MongoDB database connection for full API functionality
+- Git for version control
+
+### Bootstrap and Setup
+1. **Install Node.js 22.17.1**:
+   ```bash
+   curl -o- https://raw.githubusercontent.com/nvm-sh/nvm/v0.39.0/install.sh | bash
+   source ~/.bashrc
+   nvm install 22.17.1
+   nvm use 22.17.1
+   ```
+
+2. **Install dependencies**:
+   ```bash
+   npm install
+   ```
+   - NEVER CANCEL: Takes 2-5 seconds. Set timeout to 30+ seconds.
+
+3. **Create .env configuration file** (required for operation):
+   ```bash
+   # Create .env file in repository root
+   RERUM_API_VERSION=1.0.0
+   RERUM_BASE=http://localhost:3005
+   RERUM_PREFIX=http://localhost:3005/v1/
+   RERUM_ID_PREFIX=http://localhost:3005/v1/id/
+   RERUM_AGENT_CLAIM=http://localhost:3005/agent
+   RERUM_CONTEXT=http://localhost:3005/v1/context.json
+   RERUM_API_DOC=http://localhost:3005/v1/API.html
+   MONGO_CONNECTION_STRING=mongodb://localhost:27017/test
+   MONGODBNAME=test_rerum
+   MONGODBCOLLECTION=test_collection
+   DOWN=false
+   READONLY=false
+   PORT=3005
+   CLIENTID=test_client_id
+   RERUMSECRET=test_secret
+   BOT_TOKEN=test_bot_token
+   BOT_AGENT=test_bot_agent
+   AUDIENCE=test_audience
+   ISSUER_BASE_URL=https://test.auth0.com/
+   ```
+
+### Testing
+- **Route and Static File Tests** (work without database):
+  ```bash
+  npm run runtest -- __tests__/routes_mounted.test.js
+  ```
+  - NEVER CANCEL: Takes 30 seconds. Set timeout to 60+ seconds.
+
+- **Full Test Suite** (requires MongoDB connection):
+  ```bash
+  npm run runtest
+  ```
+  - NEVER CANCEL: Takes 25+ minutes (many tests timeout without MongoDB). Set timeout to 45+ minutes.
+  - **CRITICAL**: Most tests fail with 5-second timeouts if MongoDB is not connected - this is expected behavior in development environment.
+
+### Running the Application
+- **Start the server**:
+  ```bash
+  npm start
+  ```
+  - Server runs on `http://localhost:3005` (configurable via PORT in .env)
+  - Takes 2-3 seconds to start
+  - Displays "LISTENING ON 3005" when ready
+
+- **Stop the server**: `CTRL + C` or `CTRL + X`
+
+## Validation
+
+### Manual Testing Scenarios
+After making changes, ALWAYS validate these scenarios:
+
+1. **Server Startup**: 
+   ```bash
+   npm start
+   # Should display "LISTENING ON 3005" within 3 seconds
+   ```
+
+2. **Static File Serving**:
+   ```bash
+   curl -I http://localhost:3005/v1/API.html
+   curl -I http://localhost:3005/v1/context.json
+   curl -I http://localhost:3005/
+   # Should return 200 OK responses
+   ```
+
+3. **Route Mounting**:
+   ```bash
+   npm run runtest -- __tests__/routes_mounted.test.js
+   # Should pass all 17 tests in ~30 seconds
+   ```
+
+4. **API Authentication Behavior**:
+   ```bash
+   # Test create endpoint (matches example from Talend API Tester)
+   curl -X POST http://localhost:3005/v1/api/create -H "Content-Type: application/json" -d '{"@":"5"}'
+   # Should return 401 Unauthorized with proper auth message
+
+   # Test with invalid token  
+   curl -X POST http://localhost:3005/v1/api/create -H "Authorization: Bearer fake_token" -H "Content-Type: application/json" -d '{"@":"5"}'
+   # Should return 401 with "This token did not contain a known RERUM agent"
+   ```
+
+5. **Database-dependent endpoints** (if MongoDB available):
+   ```bash
+   curl -X POST http://localhost:3005/v1/api/query -H "Content-Type: application/json" -d '{"test": "value"}'
+   # Should either work with 200 OK or return "Topology is closed" error without MongoDB
+   ```
+
+### Working Without MongoDB
+- **WORKS**: Server startup, static file serving, route mounting tests, authentication handling
+- **FAILS**: All database operations (/query, /create, /update, /delete, /id/{id}, etc.) return "Topology is closed" errors
+- **FOR DEVELOPMENT**: Use route mounting tests to validate routing changes without requiring database setup
+
+## Common Tasks
+
+### Key Directories
+- `/routes/` - Route handlers and API endpoints (Express routes)
+- `/controllers/` - Business logic controllers (CRUD operations, GOG-specific controllers)
+- `/database/` - Database connection and utilities (MongoDB integration)
+- `/auth/` - Authentication middleware (Auth0 JWT handling)
+- `/public/` - Static files (API.html, context.json, etc.)
+- `/__tests__/` - Test files (Jest test suites)
+- `/bin/rerum_v1.js` - Main application entry point
+
+### Important Files to Monitor
+- `package.json` - Dependencies and scripts (requires Node.js 22+)
+- `app.js` - Express application setup and middleware configuration
+- `routes/api-routes.js` - Main API route definitions and mounting
+- `.env` - Configuration (create from template above)
+- `jest.config.js` - Test configuration (VM modules experimental)
+
+### Architecture Notes
+- **RESTful API**: Standard HTTP methods (GET, POST, PUT, PATCH, DELETE)
+- **Authentication**: Auth0 JWT bearer tokens required for write operations
+- **Database**: MongoDB for persistent storage, versioned objects
+- **Static Files**: Served directly from `/public` directory
+- **CORS**: Fully open ("*") for cross-origin requests
+- **Specialized Routes**: Gallery of Glosses (GOG) specific endpoints in `_gog_*.js` files
+
+### Coding Style Guidelines
+- **Semicolons**: Avoid unnecessary semicolons (e.g., at the end of most lines)
+- **Control Flow**: Prefer guard clauses over if/else statements when the meaning is clear
+- **Modern JavaScript**: Use optional chaining (`?.`) and nullish coalescing (`??`) operators and ternaries for concise code when it doesn't compromise readability
+- **Language**: Use inclusive language and labels throughout the codebase
+- **Attribution**: Include attribution for contributed code or borrowed code at the top of each file
+
+### Development Workflow
+1. **After routing changes**: Always run basic route tests: `npm run runtest -- __tests__/routes_mounted.test.js`
+2. **After configuration changes**: Test server startup: `npm start` (should display "LISTENING ON 3005")
+3. **After API changes**: Test endpoints with curl as shown in validation scenarios
+4. **For Auth0 integration testing**: Contact Research Computing Group at research.computing@slu.edu
+5. **API reference**: Use documentation at http://localhost:3005/v1/API.html
+
+### Complete Change Validation Example
+```bash
+# 1. Make your changes to routes/controllers
+# 2. Test route mounting
+npm run runtest -- __tests__/routes_mounted.test.js
+
+# 3. Test server startup  
+npm start
+# Should show "LISTENING ON 3005"
+
+# 4. In another terminal, test endpoints
+curl -I http://localhost:3005/v1/API.html
+curl -X POST http://localhost:3005/v1/api/create -H "Content-Type: application/json" -d '{"test": "value"}'
+
+# 5. Stop server: CTRL + C
+```
+
+### CI/CD Notes
+- GitHub Actions run on Node.js 22
+- Tests run with: `npm install && npm run runtest`
+- Deploy uses PM2 for process management
+- Development environment available via PR to main branch
+- Production deploys on push to main branch
+
+### Troubleshooting
+- **"Unsupported engine" warnings**: Expected with Node.js 22+ due to express-oauth2-jwt-bearer package
+- **Test timeouts**: Expected without MongoDB connection - focus on route mounting tests for development  
+- **Port conflicts**: Change PORT in .env file if 3005 is taken
+- **JWT/Auth errors**: Expected in development - requires Auth0 setup for full functionality
+- **"Cannot use import statement outside a module"**: Use `npm run runtest` (not `npm test`) - requires experimental VM modules
+- **"Jest did not exit" warning**: Normal behavior - tests complete successfully despite this warning
+
+## Build and Timing Expectations
+- **npm install**: 2-5 seconds, NEVER CANCEL (timeout: 30+ seconds)
+- **Basic tests**: 30 seconds, NEVER CANCEL (timeout: 60+ seconds)  
+- **Full test suite**: 25+ minutes with timeouts, NEVER CANCEL (timeout: 45+ minutes)
+- **Server startup**: 2-3 seconds
+- **No build step required** - Direct Node.js execution

README.md

@@ -61,7 +61,7 @@ npm install
 ```
 
 #### Create the Configuration File
-Create a file named `.env` in the root folder.  In the above example, the root is `/code_folder/tiny_things`.  `/code_folder/tiny_things/.env` looks like this:
+Create a file named `.env` in the root folder.  In the above example, the root is `/code_folder/rerum_api`.  `/code_folder/rerum_api/.env` looks like this:
 
 ```shell
 RERUM_API_VERSION = 1.0.0