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leonarski_f 0143d57eb0 CellEsdTest: synthetic cells in place of cells that looked measured

The monoclinic cell of the .ins/mmCIF and fit tests is now 10/7/12, beta 100, and the
orthorhombic, hexagonal and tetragonal cells of the sampling tests are rounded synthetic ones.

Co-Authored-By: Claude Opus 5.5 <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_015CeEGgpKdfkCTJb3YNMJcu
(cherry picked from commit 6f964bc0de0ca842f374e6aed83c8848e410173b)

2026-10-26 15:38:58 +01:00

.gitea/workflows

CI: the documentation also pushed to the gitea-pages branch of rugnux/gitea-pages, on every push for now (token test)

2026-10-26 11:39:10 +01:00

acquisition_device

v1.0.0.rc-161 (#71 )

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

broker

API: rugnux_live_refinement no longer says live refinement needs a GPU

2026-10-26 15:23:07 +01:00

common

Stills: the run's rocking curve goes to _process.h5 and --mode scale merges with it; MeasureRunWidth takes the window at each reflection's resolution

2026-10-26 14:09:32 +01:00

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

docs: front page and quick start - Rugnux goes on to a refined structure with a model

2026-10-26 15:23:07 +01:00

etc

v1.0.0-rc.166 (#76 )

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

fpga

v1.0.0-rc.180: VERSION and update_version.sh

2026-10-24 16:57:12 +02:00

frame_serialize

v1.0.0-rc.179 (#90 )

2026-10-24 14:52:29 +02:00

frontend

API: rugnux_live_refinement no longer says live refinement needs a GPU

2026-10-26 15:23:07 +01:00

gemmi_gph

Refinement restraints: the CCP4 Monomer Library subset embedded in rugnux, read through gemmi's MonLib

2026-10-25 07:20:32 +01:00

image_analysis

CellEsd: PI from JFJochMath.h instead of M_PI, and the Herbstein (2000) credit at the block e.s.d.s

2026-10-26 15:38:58 +01:00

image_puller

v1.0.0-rc.178 (#88 )

2026-10-21 11:20:01 +02:00

image_pusher

v1.0.0-rc.178 (#88 )

2026-10-21 11:20:01 +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

fast-feedback-indexer vendored in image_analysis/indexing/fast-feedback-indexer instead of fetched

2026-10-25 19:58:38 +01:00

preview

v1.0.0-rc.179 (#90 )

2026-10-24 14:52:29 +02:00

reader

Stills: the run's rocking curve goes to _process.h5 and --mode scale merges with it; MeasureRunWidth takes the window at each reflection's resolution

2026-10-26 14:09:32 +01:00

receiver

Refinement cut by the run's cancel; the hero shows the refined R-work / R-free

2026-10-26 01:38:25 +01:00

rugnux

rugnux: unit-cell e.s.d.s - ZERR in a new SHELX .ins beside the .hkl, _cell.*_esd in the mmCIF, CELL_ESD_* in the report

2026-10-26 14:33:38 +01:00

tests

CellEsdTest: synthetic cells in place of cells that looked measured

2026-10-26 15:38:58 +01:00

tools

rugnux: a placed model is refined by default - giving a model is the opt-in

2026-10-26 01:38:24 +01:00

viewer

rugnux: a placed model is refined by default - giving a model is the opt-in

2026-10-26 01:38:24 +01:00

writer

Stills: the run's rocking curve goes to _process.h5 and --mode scale merges with it; MeasureRunWidth takes the window at each reflection's resolution

2026-10-26 14:09:32 +01:00

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

Refinement restraints: the CCP4 Monomer Library subset embedded in rugnux, read through gemmi's MonLib

2026-10-25 07:20:32 +01:00

.readthedocs.yaml

version 1.0.0-rc.25

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

CLAUDE.md

fast-feedback-indexer vendored in image_analysis/indexing/fast-feedback-indexer instead of fetched

2026-10-25 19:58:38 +01:00

CMakeLists.txt

fast-feedback-indexer vendored in image_analysis/indexing/fast-feedback-indexer instead of fetched

2026-10-25 19:58:38 +01:00

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

Refinement restraints: metal ions bound to their donors by the model's LINK records

2026-10-26 01:38:24 +01:00

update_version.sh

v1.0.0-rc.175 (#85 )

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

VERSION

v1.0.0-rc.180: VERSION and update_version.sh

2026-10-24 16:57:12 +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.