SmoothImageScaleG rewrites the partials in place (image_scale_corr and
image_scale_g). On the no-reference path that is harmless: each scaling
pass recomputes G from scratch via ScaleAllImages, so smoothing always
runs on freshly-refined G. On the reference path the scaling loop is
skipped, so G is computed once and stays; running scale_and_merge twice
(P1 then the adopted space group) smoothed the already-smoothed G a
second time, compounding into a ~2x wider effective kernel than the
configured --smooth-g and biasing the merged intensities.
Smooth only on the first pass of the reference path (G is unchanged
afterwards, and the smoothed partials persist into the second pass's
combine3D). The no-reference path is unchanged.
Verified on lyso (600 frames, -P rot3d -z ref.mtz -M): the reference run
now logs the smoothing once instead of twice, and the merged MTZ changes.
Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>
leonarski_fandClaude Opus 4.8
dfc6703f4a