On flooded or noisy still frames (weakly-diffracting detectors, XFEL background,
ice) the full spot list derails the known-cell indexer: its many spurious peaks
compete with the true reflections for the search, so genuinely diffracting frames
fail to index.
Seed the indexer with a few spot-count subsets (30 / 80 / all) and keep the lattice
that explains the largest FRACTION of its own seed -- a lean, clean seed that a good
lattice indexes almost fully beats a flooded seed it fits only in small part. This
auto-selects a lean seed on noisy frames and the full seed where the extra spots are
real signal, with no per-dataset setting. Geometry refinement and integration still
use the full spot list (the orientation refiner filters spots by lattice match, so
the flood is ignored while high-resolution spots are kept), so resolution is
preserved. Costs at most ~3 indexer calls per frame, only on frames that do not
index on the first, lean seed.
Lifts the indexed-crystal yield on mildly-flooded synchrotron serial data with no
regression elsewhere. Stills only; the rotation indexing path is unaffected.
Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>
leonarski_fandClaude Opus 4.8
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