Refactor materials + add code for analysis and figures

[pssachdeva]

This PR does the following:

• Restructures repo into a package with uv; adds outer level folders for plots, scripts, prompts, configs, and tests
• Moves files in current code folder into a scripts/analysis folder
• src contains code needed for running API queries in batch mode, and running clustering pipeline
• configs contains YAML file for each experiment
• prompts contains the prompts used for scalable coding and clustering pipeline (extracting opacity blurbs and naming clusters)
• scripts is now divided into an analysis and plots folders (with other scripts at the top level)
• All paths are refactored to match the current repo (e.g., paper/figures)
• README updated with new path
• The only modifications to existing scripts are cosmetic in nature - removal of some imports, updating paths, shortening some lines - mainly to bring into compliance with ruff.