leonarski_fandjungfrau
4dc2534dbf
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**Files written by Jungfraujoch now import correctly in DIALS, XDS and pyFAI.** A tilted detector, a grid scan, a still recorded at a goniometer position, and saturated or unreadable pixels were each described in a way that a third-party program acted on wrongly. If you process Jungfraujoch data outside Jungfraujoch, prefer this release to any earlier one. * HDF5: the detector tilt (`rot1`/`rot2`/`rot3`) is exported correctly in the NXmx transformation chain; untilted geometries are unaffected. * HDF5: a still recorded at a goniometer position is no longer read back as a single image, and a grid scan records a stationary spindle so a program that requires a rotation axis can open it. * HDF5: the sample transformation chain is written in mounting order, with a Smargon head position told apart from the spindle, one entry per image, `module_offset` as a float unit vector, and `offset_units` on every offset. * HDF5: saturated, underloaded and unreadable pixels are described so a downstream program masks them - `saturation_value`, `underload_value`, `error_value` and `bit_depth_readout` are written correctly, and a data file missing next to a VDS master reads as the error marker rather than as zero counts. * HDF5: the rotation axis is read back under whatever name it carries, and `mirror_y` records whether the assembled image is mirrored in Y relative to the detector's raw readout. * A grid scan and a goniometer axis can both be set; they are no longer alternatives. * `images_per_file` is chosen from the acquisition when it is not given: a rotation sweep of at most 20000 images goes into a single data file, a grid scan splits on whole fast-axis rows, and stills and serial keep 1000. * The writer refuses a stream whose start message declares a different pixel format than its images carry, and a DECTRIS detector sending signed images is no longer declared unsigned. * The image stream can carry the sample transformation chain (`transformations`, in the END message); a producer that does not send it gets the same chain built by the writer. * rugnux: fixing the space group with `-S` no longer prevents the lattice from being found - a lattice indexed in a different setting is reindexed into that group's own setting, and a run whose crystal does not have that group's lattice stops and names the cell it indexed as, rather than reporting statistics that cannot describe it. * rugnux: the per-image resolution estimate now predicts the resolution the merged data reach rather than the highest-resolution spot found, and is reported as `SPOT_RESOLUTION_ESTIMATE`. * rugnux: two runs of the same command on the same images produce the same merged intensities; the azimuthal profile written alongside them is not yet reproducible in the same way. * rugnux: the offline lattice refinement is bounded by iterations rather than by a wall clock, so a loaded machine can no longer refine to a different lattice; a live acquisition keeps its real-time bound. * rugnux: the detector-frame modulation correction is fitted on a grid spanning the detector, so whether it is applied no longer depends on how far integration reached. * rugnux: the geometry pre-pass no longer writes `<prefix>_01.mtz`, `_01.cif`, `_01.hkl` and `_01_image.dat`; the refined second pass writes those files under `<prefix>`, and that is the result to use. * rugnux: `_process.h5` describes the pixel format of the images it links to, and is written on a thread of its own. * rugnux: the detector geometry is also logged in XDS's convention (`ORGX`/`ORGY`, detector axis vectors, rotation axis), so it can be compared with an XDS refinement. * rugnux: an image integrated in pyFAI through the `.poni` file written by `--mode calibration` comes out with the correct azimuth, and the file declares pyFAI's `orientation`, which needs pyFAI 2024.01 or newer. Radial integration is unchanged. * rugnux: a rotation run is substantially faster throughout - beam-stop detection, first-pass indexing, geometry refinement, integration, scaling and merging - and observations outside the scaling resolution range are dropped as they are ingested. The refined geometry, the space group chosen and the merged statistics are unchanged. * Faster spot finding and indexing, on the broker as well as in rugnux; the spots found and the lattices indexed are unchanged. * A run reserves substantially less GPU memory: nothing is allocated for buffers that are never read, and a worker builds only the engines it uses. * rugnux: with `-N` left at its default the per-image loop of `--mode mx` uses at most 16 workers per GPU, rather than one per hardware thread; an explicit `-N` is obeyed as given. * CUDA 12 builds now contain device code for Volta, so the RHEL 8 packages and the portable Linux `.tgz` run on a V100; the CUDA 13 artefacts (RHEL 9, Ubuntu, Windows) remain Turing and newer. * The build resolves a single Eigen for the whole project, and refuses to configure if Ceres picks up a different one; a build that mixed two Eigen versions was undefined behaviour and crashed at -O2. * Documentation: a security page, and the supported GPU generations and minimum NVIDIA driver version of every released artefact. **Breaking change to OpenAPI** - regenerate the client (`jfjoch-client` 1.0.0-rc.162, `frontend/src/client`): * `dataset_settings.images_per_file` is no longer `default: 1000` and no longer accepts `0`; it is optional, and its minimum is 1. A client sending `0` (previously "one file for the whole run") is now rejected - omit the field instead, which for a rotation sweep gives the same single file. * `file_writer_format` now defaults to `NXmxVDS`, matching the server's own default and the layout recommended for DIALS, XDS and CrystFEL. A generated client that fills in schema defaults and does not set the format explicitly will write VDS masters where it previously wrote legacy ones; set `NXmxLegacy` explicitly to keep them. --------- Co-authored-by: jungfrau <jungfrau@mx-aare-test.psi.ch> Reviewed-on: #72 Co-authored-by: Filip Leonarski <filip.leonarski@psi.ch>
66 lines
1.8 KiB
JSON
66 lines
1.8 KiB
JSON
{
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"name": "jungfraujoch-frontend",
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"version": "1.0.0-rc.162",
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"license": "GPL-3.0",
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"private": true,
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"homepage": "/frontend",
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"type": "module",
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"dependencies": {
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"@emotion/react": "^11.10.4",
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"@emotion/styled": "^11.10.4",
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"@mui/icons-material": "^6.1.2",
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"@mui/material": "^6.1.2",
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"@mui/x-data-grid": "^7.19.0",
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"@tanstack/react-query": "^5.101.0",
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"@types/node": "^25.2.3",
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"@types/react": "^19.2.14",
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"@types/react-dom": "^19.2.3",
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"@vitejs/plugin-react-swc": "^4.2.3",
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"lodash": "^4.17.23",
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"plotly.js-cartesian-dist-min": "^3.3.1",
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"react": "^19.2.4",
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"react-dom": "^19.2.4",
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"react-markdown": "^10.1.0",
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"react-plotly.js": "^2.6.0",
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"react-zoom-pan-pinch": "^3.4.3",
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"remark-gfm": "^4.0.1",
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"typescript": "^5.9.3",
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"vite": "^7.3.1",
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"vite-plugin-svgr": "^4.5.0",
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"vite-tsconfig-paths": "^6.1.1",
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"zod": "^4.4.3"
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},
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"scripts": {
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"start": "vite",
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"build": "tsc && vite build",
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"serve": "vite preview",
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"redocly": "redocly build-docs ../broker/jfjoch_api.yaml --output=dist/openapi.html",
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"docs": "bash ../make_doc.sh dist/docs",
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"redocly4broker": "redocly build-docs ../broker/jfjoch_api.yaml --output=../broker/redoc-static.html",
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"licenses": "node scripts/generate-third-party-licenses.mjs",
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"openapi": "openapi-ts"
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},
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"overrides": {
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"styled-components": "5.3.11"
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},
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"browserslist": {
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"production": [
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">0.2%",
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"not dead",
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"not op_mini all"
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],
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"development": [
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"last 1 chrome version",
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"last 1 firefox version",
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"last 1 safari version"
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]
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},
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"devDependencies": {
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"@hey-api/openapi-ts": "^0.98.2",
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"@redocly/cli": "^2.28.1",
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"@types/lodash": "^4.17.10",
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"@types/react-plotly.js": "^2.6.3",
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"esbuild-style-plugin": "^1.6.3"
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}
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}
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