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Jungfraujoch/common/Definitions.h
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leonarski_f 538f3504d3
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v1.0.0.rc-161 (#71)
This is an UNSTABLE release. It includes many experimental features, as well as many AI generated fixes. We recommend using rc.152 for production use.

* **rugnux: significantly better quality of results, and faster.** A large rework of integration, scaling, merging, geometry refinement and space-group determination, together with measurements the program previously made no attempt at - the direct beam before indexing, the beam stop, the goniometer rotation scale, and the stretches of a sweep the crystal did not deliver. A rotation dataset typically gains observations at better <I/sigma> and R_meas, and every `mx` and `scale` run writes a `<prefix>_report.txt` results report modelled on XDS's `CORRECT.LP`. Many defaults moved with it: spot detection is self-calibrating, beam-stop detection and rotation geometry post-refinement are on, resolution limits default to as far as the detector reaches, and ice-ring handling engages only where the crystal is measured to have ice.
* **jfjoch_viewer:** the beam-stop shadow, the detector calibration and the beam-centre measurement are reachable from "Analyze dataset"; the settings panel reports how the sample moved and how polarized the beam was; image rendering and interaction are faster.
* **Performance:** bitshuffle+LZ4 images are decoded on the GPU rather than on the host, with the bitshuffle inverse fused into preprocessing so the decompressed frame is never held in device memory.
* **Broker, writer, packaging and build:** image-slot lifetime and locking fixes, per-image datasets sized by the images actually written, the Debian/Ubuntu broker package renamed to `jfjoch`, and `image_analysis` compiling under MSVC again.

**Breaking change to the rugnux command line:**
* `--azint-only` and `--scale` are **removed**, replaced by `--mode azint` and `--mode scale`; the full pipeline is `--mode mx` and remains the default. A script passing the old flags now fails with the list of valid modes rather than silently running the wrong one.
* `-t`/`--stride` is **refused on rotation data**: skipping frames cuts every reflection's rocking curve, so the combined fulls and their partiality would be measured over frames the sweep never recorded. Select a contiguous range with `-s`/`-e` instead. `--mode azint` and `--force-still` still take a stride.

**Breaking changes to OpenAPI** - regenerate the client (`jfjoch-client` 1.0.0-rc.161, `frontend/src/client`) or read the affected fields as optional:
* `image_scale_b` is removed from the `plot_type` enum, so a client requesting that plot now gets an error rather than a curve.
* `azim_int_settings.high_q_recipA`, `spot_finding_settings.high_resolution_limit` and `spot_finding_settings.low_resolution_limit` are no longer `required`. All three mean "no limit at that end" when unset and are omitted from the response instead of carrying a placeholder value, which raises in a client generated from an rc.160-or-earlier spec. A value of 0 is still accepted and means the same thing.

**Breaking changes to the stored formats** - a consumer reading these fields must treat them as optional:
* The per-image image-scale B factor is no longer computed, so `/entry/MX/imageScaleBFactor` is absent from newly written HDF5 files and the corresponding key is absent from the CBOR DataMessage and END blocks. Files written by rc.160 and earlier still contain it and still open; nothing in the pipeline reads it any more.
* `_reflns.jfjoch_diffrn_ISa` now carries the whole-range `1/sqrt(a*b)` that XDS's ISa denotes, and the error-model `a` and `b` are reported in XDS's convention; the strong-reflection asymptote moves to `_reflns.jfjoch_diffrn_ISa_asymptotic`. **A file written by an earlier version carries the asymptote under the plain `ISa` name.**

Reviewed-on: #71
Co-authored-by: Filip Leonarski <filip.leonarski@psi.ch>
2026-08-13 17:03:10 +02:00

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3.0 KiB
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// SPDX-FileCopyrightText: 2024 Filip Leonarski, Paul Scherrer Institute <filip.leonarski@psi.ch>
// SPDX-License-Identifier: GPL-3.0-only
#pragma once
#include "../fpga/pcie_driver/jfjoch_fpga.h"
#include <cstdint>
#include <cstddef>
#include <chrono>
#include <array>
#include <cmath>
constexpr float WVL_1A_IN_KEV = 12.39854f;
constexpr size_t CONVERTED_MODULE_LINES = 514;
constexpr size_t CONVERTED_MODULE_COLS = 1030;
constexpr size_t CONVERTED_MODULE_SIZE = CONVERTED_MODULE_LINES * CONVERTED_MODULE_COLS;
constexpr size_t JUNGFRAU_PACKET_SIZE_BYTES = 8192;
constexpr int MAX_IMAGE_NUMBER = 2*1024*1024;
constexpr std::chrono::nanoseconds MIN_COUNT_TIME = std::chrono::microseconds(3);
constexpr std::chrono::nanoseconds MIN_STORAGE_CELL_DELAY = std::chrono::nanoseconds(2100);
constexpr std::chrono::nanoseconds MIN_FRAME_TIME_JUNGFRAU_HALF_SPEED = std::chrono::microseconds(1000);
constexpr std::chrono::nanoseconds MIN_FRAME_TIME_JUNGFRAU_FULL_SPEED = std::chrono::microseconds(470);
constexpr std::chrono::nanoseconds MIN_FRAME_TIME_EIGER = std::chrono::microseconds(250);
constexpr std::chrono::nanoseconds MAX_COUNT_TIME_JUNGFRAU = std::chrono::microseconds(2000);
constexpr std::chrono::nanoseconds FRAME_TIME_PEDE_G1G2 = std::chrono::microseconds(10*1000);
constexpr std::chrono::nanoseconds PSI_JUNGFRAU_READOUT_TIME = std::chrono::microseconds(20);
constexpr std::chrono::nanoseconds PSI_EIGER_READOUT_TIME = std::chrono::microseconds(20);
constexpr std::chrono::nanoseconds DARK_MASK_FRAME_TIME = std::chrono::milliseconds(10);
constexpr float MIN_ENERGY_KEV = 0.001;
constexpr float MAX_ENERGY_KEV = 500.0;
constexpr float DEFAULT_G0_FACTOR = 41.0f;
constexpr float DEFAULT_G1_FACTOR = -1.439f;
constexpr float DEFAULT_G2_FACTOR = -0.1145f;
constexpr float DEFAULT_HG0_FACTOR = 100.0f;
constexpr int MAX_SPOT_COUNT = 64 * 1024;
constexpr uint32_t MASK_PEDESTAL_G0_RMS_LIMIT = (1U<<4);
constexpr size_t PEDESTAL_MIN_IMAGE_COUNT = 128;
constexpr uint16_t PEDESTAL_WRONG = (UINT16_MAX);
constexpr size_t PEDESTAL_G0_WRONG_GAIN_ALLOWED_COUNT = 2;
constexpr size_t MESSAGE_SIZE_FOR_START_END = (256*1024*1024); // pessimistic highest value
constexpr float LAB6_CELL_A = 4.156468f;
// Ice ring resolution taken from:
// Moreau, Atakisi, Thorne, Acta Cryst D77, 2021, 540,554
// https://journals.iucr.org/d/issues/2021/04/00/tz5104/index.html
constexpr std::array<float, 11> ICE_RING_RES_A = {3.895, 3.661, 3.438, 2.667, 2.249, 2.068, 1.947, 1.916, 1.882, 1.719, 1.522};
// True when resolution d (Angstrom) sits within half_width of a hexagonal-ice powder ring, in the
// q = 2*pi/d units the spot-finder uses (ice_ring_width_Q_recipA). Used to drop ice-contaminated
// reflections from scaling/merging when ice-ring handling is enabled.
inline bool IsOnIceRing(float d_A, float half_width_q_recipA) {
if (!(d_A > 0.0f))
return false;
constexpr float two_pi = 6.283185307f;
const float q = two_pi / d_A;
for (const float ice_d : ICE_RING_RES_A)
if (std::fabs(q - two_pi / ice_d) < half_width_q_recipA)
return true;
return false;
}