leonarski_fandClaude Opus 4.8
818ec8fcbf
Rotation scaling gained a third cross-validated correction surface alongside decay and absorption: a smooth multiplicative factor over the predicted detector position (px, py) where each full lands. It absorbs detector-response and geometric flat-field systematics that vary across the detector plane and inflate R-meas; symmetry-equivalents of one reflection land at different detector positions as the crystal rotates, over-determining the surface. Because it lives in the detector frame (not the rotation), the same correction concept applies to stills. The surface fit/cross-validate/apply machinery shared with the absorption surface is factored into ApplyCellSurface; RefineAbsorption and the new RefineModulation just build their per-full cell assignment (goniometer-frame vs detector-frame) and call it. The cross-validation now scores a sigma-INDEPENDENT, R-meas-like fractional agreement of the held-out equivalents rather than a studentized chi^2, so a surface can no longer pass CV by reshaping sigma without tightening the intensities - this removes an over-fit regression on mis-indexed data and hardens the absorption surface too. On the /data/rotation_test rotation battery (A/B, modulation off vs on): 17 of 22 processed crystals improve R-meas, 0 regress, e.g. lysoC 23.2->16.3%, lyso_2 47.4->28.5%, EcwtAL500 53.2->27.6%, EP_cs_01-17 CC1/2 60->93%; CC1/2 held or improved everywhere and the anomalous S signal preserved/improved (lyso_ref SD_MET 4.37->4.46, lysoC 3.07->3.25). On by default with the other surfaces. Also: --dump-observations now writes the per-full centroid frame and predicted px/py columns, so the dumped combined fulls are a complete unmerged export. Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>
Jungfraujoch
Application to receive data from the PSI JUNGFRAU and EIGER detectors.
All documentation is now placed in docs/ subdirectory and for the current version hosted on Jungfraujoch Read The Docs page.