Two defects the merge created and one the API carried.
Rugnux gated the per-image spot engine on AnalysisModeIsMX, so AnalysisMode::Grid
fell through to the azimuthal-integration-only path: a raster ran, scored nothing,
and reported no crystals. The gate now asks the stages table whether the mode does
spot finding, which is the actual question - three modes need that engine for three
different reasons, and a fourth would otherwise have to be remembered here too.
max_crystals was a required integer defaulting to 10, with 0 meaning "all". Zero
reads as "report no crystals", the opposite of what it did. It is now optional, and
absent means no cap; a crystal found and then dropped is information the caller
cannot get back. grow_score_threshold was missing from the schema entirely.
Measured over the labelled corpus after these fixes: 34 of 34 confirmed-protein
rasters yield a crystal, 0 of 8 water, 0 of 6 ice, 19 of 19 heldout.
Co-Authored-By: Claude Opus 5 <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01EFEJG6WBQv8th4UJFNe53N
leonarski_fandClaude Opus 5
d4f280047f