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leonarski_fandClaude Opus 5.5 43e4207aaa still battery: --cold evicts each set's input from the page cache; Alvra pixel masks; manifest fixes

- still_battery.py run --cold: posix_fadvise(DONTNEED) on a set's input files just before its run, so
  every timed row is a cold read without root (the page-cache column confirms it).
- Alvra sets use the depositors' pixel masks (--mask-good); the MbCO int16 glob now finds the copies,
  which keep the tarball's directory tree; LCLS 242 states its wavelength (the XTC does not).
- EXTERNAL_TEST_DATA_STILLS.md names the mask files and the one MbCO dark run that holds no frames.

Co-Authored-By: Claude Opus 5.5 <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_015CeEGgpKdfkCTJb3YNMJcu

2026-10-21 08:59:36 +02:00

.gitea/workflows

v1.0.0-rc.175 (#85 )

2026-10-16 15:34:43 +02:00

acquisition_device

v1.0.0.rc-161 (#71 )

2026-08-13 17:03:10 +02:00

broker

v1.0.0-rc.178: version bump

2026-10-20 23:00:10 +02:00

common

DetectorModules.h: include <cstddef> for size_t

2026-10-21 08:48:32 +02:00

compression

v1.0.0-rc.175 (#85 )

2026-10-16 15:34:43 +02:00

detector_control

v1.0.0-rc.175 (#85 )

2026-10-16 15:34:43 +02:00

docker

1.0.0-rc.174 (#84 )

2026-10-06 14:03:18 +02:00

docs

still battery: --cold evicts each set's input from the page cache; Alvra pixel masks; manifest fixes

2026-10-21 08:59:36 +02:00

etc

v1.0.0-rc.166 (#76 )

2026-09-02 21:17:31 +02:00

fpga

v1.0.0-rc.178: version bump

2026-10-20 23:00:10 +02:00

frame_serialize

v1.0.0-rc.176 (#86 )

2026-10-19 07:03:28 +02:00

frontend

v1.0.0-rc.178: version bump

2026-10-20 23:00:10 +02:00

gemmi_gph

v1.0.0-rc.176 (#86 )

2026-10-19 07:03:28 +02:00

image_analysis

Serial XFEL stills inputs: readers from the files themselves, module geometry and its refinement

2026-10-20 23:30:48 +02:00

image_puller

Live rugnux timing: from the puller's receive time, and from the first image

2026-10-19 19:35:54 +02:00

image_pusher

broker: initialize drops the dataset's bearer tokens and everything they protected

2026-10-20 12:16:32 +02:00

include

v1.0.0-rc.133

2026-03-26 20:50:33 +01:00

jungfrau

v1.0.0-rc.153 (#63 )

2026-06-23 20:29:49 +02:00

licenses

v1.0.0-rc.176 (#86 )

2026-10-19 07:03:28 +02:00

preview

v1.0.0-rc.175 (#85 )

2026-10-16 15:34:43 +02:00

reader

JFJochXFELReader: the positional-read handles are held for the most recent files only

2026-10-21 01:52:55 +02:00

receiver

broker: initialize and start clear the last collection's live rugnux status

2026-10-20 01:00:54 +02:00

rugnux

rugnux stills: the saturation log says why a stated limit is kept

2026-10-21 01:52:55 +02:00

tests

Serial XFEL stills inputs: readers from the files themselves, module geometry and its refinement

2026-10-20 23:30:48 +02:00

tools

still battery: --cold evicts each set's input from the page cache; Alvra pixel masks; manifest fixes

2026-10-21 08:59:36 +02:00

viewer

jfjoch_viewer: opens the serial XFEL inputs, and the files of one dataset together

2026-10-20 23:41:57 +02:00

writer

Serial XFEL stills inputs: readers from the files themselves, module geometry and its refinement

2026-10-20 23:30:48 +02:00

xds-plugin

v1.0.0-rc.175 (#85 )

2026-10-16 15:34:43 +02:00

.gitattributes

v1.0.0-rc.153 (#63 )

2026-06-23 20:29:49 +02:00

.gitignore

v1.0.0-rc.175 (#85 )

2026-10-16 15:34:43 +02:00

.readthedocs.yaml

version 1.0.0-rc.25

2024-11-22 21:25:20 +01:00

CLAUDE.md

v1.0.0-rc.175 (#85 )

2026-10-16 15:34:43 +02:00

CMakeLists.txt

v1.0.0-rc.175 (#85 )

2026-10-16 15:34:43 +02:00

CONTRIBUTING.md

version 1.0.0-rc.27

2024-12-02 21:17:14 +01:00

gen_python_client.sh

v1.0.0.rc-161 (#71 )

2026-08-13 17:03:10 +02:00

gitea_create_release.py

v1.0.0-rc.94

2025-10-25 22:05:47 +02:00

gitea_upload_file.py

v1.0.0-rc.156 (#66 )

2026-07-03 19:18:56 +02:00

LICENSE

v1.0.0-rc.175 (#85 )

2026-10-16 15:34:43 +02:00

make_doc.sh

v1.0.0.rc-161 (#71 )

2026-08-13 17:03:10 +02:00

README.md

1.0.0-rc.174 (#84 )

2026-10-06 14:03:18 +02:00

THIRD_PARTY_NOTICES.md

v1.0.0-rc.176 (#86 )

2026-10-19 07:03:28 +02:00

update_version.sh

v1.0.0-rc.175 (#85 )

2026-10-16 15:34:43 +02:00

VERSION

v1.0.0-rc.178: version bump

2026-10-20 23:00:10 +02:00

README.md

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.