5 Commits

Include renames

Author	SHA1	Message	Date
leonarski_fandClaude Opus 5.5	2629f3821c	XDS plugin 1.1.0: mask module/chip edges, pass saturation through; recommend Durin ... Plugin: - Module-edge (bit 30) and chip-edge (bit 31) pixels are marked -2 (untrusted). Chip-edge pixels are split from a larger pixel with integer division and read low at low counts; feeding them to XDS as real pixels was what made the three plugins disagree in CI. - A saturated pixel in a signed image (INTx_MAX) is passed through with its value, so XDS counts it as an overload; only the error marker (INTx_MIN / UINTx_MAX) becomes -1. - Release version 1.1.0 set in CMake (library name and start message). VERSION_* in plugin.h stay 0: XDS refuses a plugin whose info-array major version is not 0. - Built and packaged on Linux only; the untested macOS archive is dropped. - The XDS linking permission is removed from LICENSE; the plugin is GPL-3.0. CI: - XDS.INP beam centre corrected to 1091/1137 (ORGY was 7.7 px off, which put IDXREF on a knife edge where one plugin's run fell into a false minimum). - Each XDS case must reach CORRECT, IDXREF spot SD must be < 2 px, and all file layouts read by the same plugin must give identical SPOT.XDS. Docs: recommend Durin (PSI or Global Phasing build); mask-bit table rewritten from measurement. Co-Authored-By: Claude Opus 5.5 (1M context) <noreply@anthropic.com>	2026-10-08 10:56:34 +02:00
leonarski_fandClaude Opus 5.5	07ae3c3a40	XDS plugin: GPL linking permission, own tgz with its notices, macOS build; one portable CI build ... LICENSE: the section-7 addendum is rewritten as numbered additional permissions. CUDA libraries are treated as System Libraries (Intel MKL dropped - never linked). New: the XDS plugin may be linked with the closed-source XDS, valid only while it contains no third-party GPL code. The plugin links HDF5, zlib-ng, Zstandard and Compression (LZ4, Bitshuffle, Bitshuffle h-perf) and nothing else - no FFTW. In a portable (viewer-only) build it is its own CPack component, shipped as jfjoch_xds_plugin-<version>-<os>-<arch>.tar.gz with LICENSE, a short xds-plugin/THIRD_PARTY_NOTICES.md and only those six licence texts. On macOS it now exports only plugin_* (--exclude-libs does the same on Linux). The RPM/DEB packaging is unchanged. The viewer-only build already compiled everything rugnux needs, so it now packs one archive per program: Linux three .tar.gz (viewer, rugnux, plugin); macOS the viewer .dmg plus rugnux and plugin .tar.gz, each generator getting its components through CPACK_PROJECT_CONFIG_FILE. CI merges build-viewer-tgz + build-rugnux-tgz into build-portable-tgz (cuda and nocuda, so Linux rugnux gains a -cpu archive) and the two macOS jobs into build-macos. Both check that FFTW is neither on the plugin's link line nor in its symbol table and that it exports only plugin_*. The bare .so upload from the RPM job is dropped. RUGNUX_ONLY stays for aarch64 and Windows. Verified locally (Linux, CPU, CI flags): three tarballs, the plugin link line is exactly the list above, 0 FFTW symbols, four exports, system-only dynamic deps; XDS loads the packaged plugin. Co-Authored-By: Claude Opus 5.5 (1M context) <noreply@anthropic.com>	2026-10-07 20:29:19 +02:00
leonarski_f	9aae0c2ba7	v1.0.0-rc.169 (#79) ... * Building Jungfraujoch no longer needs zlib or Eigen installed on the machine, and the dependencies the build fetches are pinned and updated to current releases. * rugnux: improvements in indexing, lattice selection and geometry post-refinement, which index crystals that previously returned no lattice and keep the better of the two geometries a run measures. * rugnux: improvements in beam-centre measurement, beam-stop detection and space-group determination. * rugnux: the unit cell reported with a determined space group now obeys that group - a cell whose symmetry was confirmed from the intensities is re-refined under it, and a cell the group cannot describe is reported with a warning rather than as it stands. * rugnux drops the stretches of a rotation sweep whose removal measurably improves the merged intensities and reports what became of every frame, and decides the resolution cut on the crystal's own diffraction rather than on its ice rings. * The rugnux results report is machine-readable - every line that is not `KEY= value` data starts with `#` - and states the build it was written by, its authorship and its terms of use (`REPORT_VERSION= 8`). * `jfjoch_viewer`: improvements in the file manager (CBF frames beside HDF5 datasets, a remembered root), the dataset plots, the inspector and the image statistics, plus a settable font size, a view of the rugnux results report, usable performance over a remote display (`ssh -X`) and a reset of all settings to defaults; the reciprocal-space window is removed. * Broker fixes around DECTRIS collections and dark-mask calibration: re-initialising after a run that never started no longer freezes the broker, a cancelled calibration is abandoned instead of reported as done, and a collection whose start message never arrives ends by itself. Reviewed-on: #79 Co-authored-by: Filip Leonarski <filip.leonarski@psi.ch>	2026-09-15 17:09:31 +02:00
leonarski_f	ea575f790a	v1.0.0-rc.149 (#59) ... * XDS plugin: Fix HDF5 mutex to run on multiple processors Reviewed-on: #59	2026-06-13 21:27:41 +02:00
leonarski_f	4a852b4d6b	v1.0.0-rc.134 (#43) ... This is an UNSTABLE release. The release has significant modifications and bug fixes, if things go wrong, it is better to revert to 1.0.0-rc.132. * jfjoch_broker: Add better locking for detector object - should help, when detector initialization takes too long * jfjoch_writer: Enable writing single, integrated HDF5 file with both data and metadata * XDS plugin: Add generation of Jungfraujoch plugin for XDS * CI: Add tests with XDS and DIALS (`xia2.ssx`) Reviewed-on: #43	2026-04-09 13:30:47 +02:00