RFD4-Proteína Evaluate (post-hoc metrics + aggregation)

Purpose

Score structures that already exist on disk, without re-running generation. evaluate.py shares the exact same metrics stack and Hydra config as generation, so any metrics_tags or custom-metric config behaves identically inline and offline. The two things this skill exists to get right: (1) pick the right metric tags for the design task (and know which ones silently need the AF3 container), and (2) aggregate the parallel per-job CSVs into one table before you try to read results.

Run everything from the repository root (the directory containing .project-root). All arguments are Hydra key=value, never --key value.

Inline (during generation) vs post-hoc (this skill)