bgc-viewer 0.2.0

A viewer to explore and visualize Biosynthetic Gene Cluster data

BGC Viewer

A viewer for biosynthetic gene cluster (BGC) data.

Installation & run

Using Python 3.11 or higher, install and run the BGC Viewer as follows:

pip install bgc-viewer
bgc-viewer

This will start the BGC Viewer server, to which you can connect with your web browser.

Configuration

Environment variables can be set to change the configuration of the viewer. A convenient way to change them is to put a file called .env in the directory from which you are running the application.

Basic Configuration

BGCV_HOST=localhost       # Server host (default: localhost)
BGCV_PORT=5005            # Server port (default: 5005)
BGCV_DEBUG_MODE=False     # Enable dev/debug mode (default: False)

Public Mode (Multi-user Deployment)

BGCV_PUBLIC_MODE=True                         # Enable public mode
BGCV_DATABASE_PATH=/path/to/attributes.db     # Path to index database file (required)
BGCV_SECRET_KEY=your-secret-key               # Secret key for session signing (required)
REDIS_URL=redis://localhost:6379              # Redis URL for session storage (recommended)
HTTPS_ENABLED=True                            # Enable secure cookies for HTTPS
BGCV_ALLOWED_ORIGINS=https://yourdomain.com   # Allowed CORS origins

In public mode:

• The database path points to an attributes.db index file
• The actual data location (data_root) is read from the database metadata
• Multiple users can access the application simultaneously with session support
• File system browsing and preprocessing endpoints are disabled

For more configuration options, see .env.example.

Development

See the repository main README for development details.

uv run python -m bgc_viewer.app

License

Apache 2.0