leonarski_f
f199f23c54
Wherever the correction is set for the whole run its curve is the frame's peak-excluded ring background (the adaptive spot finder's, whole frame) and the ring's clip follows it - as stills have done since integ-pal - now rotation too. One empty-aperture measurement (BackgroundAperture) decides it for both workflows: - The apertures' corrected difference is now taken as the integrator applies the correction: the clip follows the curve (each ring pixel's threshold raised by the curve's rise from the centre, in whole counts) as well as the kernel correction. Before, the tally clipped flat, so it measured a correction the engine never applies. - Rotation measures the stencils the spot width can give it (r1 = 4, 5, 6 with the ring-area rule, RotationStencil) and decides on the one it gets, and separately on the pre-adaptive stencil the geometry pre-pass and the starvation guard return to. - Stills: on wherever the corrected ring predicts the empty disk better (unchanged rule). Rotation: the frame's curve on every image only where it takes >= 10% of the apertures' mean square error away (ROTATION_RADIAL_MIN_GAIN); otherwise the existing per-image ice gate with the reflections' curve is left exactly as it was. Why a margin on rotation only: a still has no other correction, a sweep has one. Measured over 18 rotation sets (forced on every image): photon-counting sweeps gain 0.1-5% on the apertures (z 3-4) and lose ISa/anomalous signal when corrected (insulin, lysozyme, cytochrome c; 9yzk R-free +0.009 at 1.2%), as the earlier stills-rule trial found; the home-source CCD and smooth-ice runs gain 13-31%. Result (CPU A/B vs 87684012f, 18 rotation sets): 12 .hkl byte-identical (every photon-counting control without ice), 5uth R-free 0.210 -> 0.201 / ISa 10.4 -> 10.8, the ice set neutral; stills: lcls242_s turns the correction on (the clip-following tally), R-free 0.2399 -> 0.2406. No integration kernel changed; the tally is host code. Tests: BackgroundAperture_CorrectedClipFollowsTheCurve, RadialHelps margins. Co-Authored-By: Claude Opus 5.5 <noreply@anthropic.com> Claude-Session: https://claude.ai/code/session_015CeEGgpKdfkCTJb3YNMJcu (cherry picked from commit dd3f3f2da39f5338e7dda1874bbdd535229bce98)
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.