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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>
69 lines
2.8 KiB
C++
69 lines
2.8 KiB
C++
// SPDX-FileCopyrightText: 2025 Filip Leonarski, Paul Scherrer Institute <filip.leonarski@psi.ch>
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// SPDX-License-Identifier: GPL-3.0-only
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#include "../common/print_license.h"
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#include "../common/Logger.h"
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#include "../detector_control/DectrisSimplonClient.h"
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#include "../preview/JFJochTIFF.h"
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int main(int argc, char **argv) {
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print_license("jfjoch_simplon_test");
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Logger logger("jfjoch_simplon_test");
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logger.Verbose(true);
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if ((argc != 2) && (argc != 3)) {
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std::cout << "Usage: ./jfjoch_simplon_test <DECTRIS Simplon hostname/IP> {<port>}" << std::endl;
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exit(EXIT_FAILURE);
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}
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uint16_t port = 80;
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if (argc == 3)
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port = atoi(argv[2]);
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DetectorSetup setup = DetDECTRIS(1,1,"Detector1", argv[1]);
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DectrisSimplonClient cli(argv[1], port);
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DiffractionExperiment experiment(setup);
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try {
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cli.ReadDetectorConfig(setup);
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} catch (const JFJochException &e) {
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logger.ErrorException(e);
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exit(EXIT_FAILURE);
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}
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logger.Info("State {}", to_string(cli.GetState()));
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logger.Info("Serial number {}", setup.GetSerialNumber() );
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logger.Info("Width {:8d} pxl", setup.GetGeometry().GetWidth(true));
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logger.Info("Height {:8d} pxl", setup.GetGeometry().GetHeight(true));
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logger.Info("Sensor material {}", setup.GetSensorMaterial() );
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logger.Info("Sensor thickness {:8.1f} um", setup.GetSensorThickness_um());
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logger.Info("Pixel size {:8.1f} um", setup.GetPixelSize_mm() * 1e3f);
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logger.Info("Readout time {:8d} ", setup.GetReadOutTime().count());
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logger.Info("Min count time {:8d}", setup.GetMinCountTime().count());
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logger.Info("Min frame time {:8d}", setup.GetMinFrameTime().count());
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logger.Info("Min threshold {:8.2f} keV", setup.GetMinThreshold_keV());
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auto mask = cli.GetPixelMask();
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logger.Info("Pixel mask size {:8d}", mask.size());
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CompressedImage image(mask, setup.GetGeometry().GetWidth(true),
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setup.GetGeometry().GetHeight(true));
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WriteTIFFToFile("det_mask.tiff", image);
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if (setup.GetBitDepthImage())
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logger.Info("Bit depth image {:8d}", setup.GetBitDepthImage().value());
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experiment.FrameTime(std::chrono::milliseconds(100), std::chrono::milliseconds(10))
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.IncidentEnergy_keV(8.0)
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.NumTriggers(5).ImagesPerTrigger(2).BeamX_pxl(234).BeamY_pxl(345).DetectorDistance_mm(100.0);
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experiment.ImportDetectorSettings(experiment.GetDetectorSettings().EigerThreshold_keV(3.2));
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try {
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cli.ConfigureDetector(experiment);
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} catch (const JFJochException &e) {
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logger.ErrorException(e);
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exit(EXIT_FAILURE);
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}
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exit(EXIT_SUCCESS);
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}
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