Progress bar for indexing

[jamesbraza]

This PR:

• Decomposes agents.__init__ behaviors for readability and importability
• Adds forgotten rich to mypy dependencies
• Integrates progress bar for CLI or opt-in/out via env vars

[jamesbraza]

This Console was why rich's Progress wasn't playing nice earlier

[whitead]

╔════════════════════════════════════╗
║        ~~~ Progress Tracker ~~~    ║
╠════════════════════════════════════╣
║                                    ║
║   Winning: [████████▒▒▒▒▒▒▒▒▒▒] 60%║
║                                    ║
╚════════════════════════════════════╝

[jamesbraza]

Closing this for now as what happens at inference time is 5 million progress bars show up, one per paper_search. I made an issue to track this upstream issue #488

I will close for now in favor of that