leonarski_fandClaude Opus 5.5
72cc542d78
The stills merge dropped every observation with a saturated pixel. On a still the saturated observations are the fully recorded ones of the strongest low-resolution reflections, so what survived were their partial observations, whose partiality correction then set the merged intensity: on clipped CCD stills the merged low-resolution intensities came out at 0.4-0.6x of the deposited ones, a ramp no Wilson B absorbs, invisible to CC1/2 and R_split. The pixels are really clipped (flat-topped plateaus a few per mille wide, a pile-up in the pixel-value histogram from the per-pixel ADC limit), so the auto ceiling is right; the drop was the defect. A still now keeps the observation: the box sum with every saturated pixel counted at the saturation limit, unflagged and marked clipped, counted in BraggIntegrationCounts and reported as OVERLOADED_REFLECTIONS_KEPT. Rotation data (IsRotationIndexing) are unchanged and keep the flag for the rocking-event drop. Measured on a clipped-CCD stills subset (dimple R-free, deposited free set): dropped 0.247, lower bound 0.230 (same as switching saturation off). A Kabsch fit to the unsaturated wings read lower than the lower bound (0.237), and inflating the lower bound's sigma lost (0.255). Co-Authored-By: Claude Opus 5.5 <noreply@anthropic.com>
Jungfraujoch
Application to receive and analyse data from the PSI JUNGFRAU and EIGER detectors, together with
rugnux, its program for processing stored diffraction data - rotation and serial, macromolecular
and small-molecule - from images to merged reflections.
All documentation is now placed in docs/ subdirectory and for the current version hosted on Jungfraujoch Read The Docs page.