Build Packages / Create release (push) Successful in 17s
Build Packages / build:portable:macos-arm64:nocuda (push) Successful in 4m41s
Build Packages / HDF5 consumer tests (DIALS, XDS) (push) Successful in 20m49s
Build Packages / build:portable:windows-x86_64:nocuda (push) Successful in 13m6s
Build Packages / build:portable:windows-x86_64:cuda (push) Successful in 23m44s
Build Packages / build:rugnux:linux-aarch64:cuda (push) Successful in 7m28s
Build Packages / build:portable:linux-x86_64:nocuda (push) Successful in 11m50s
Build Packages / build:portable:linux-x86_64:cuda (push) Successful in 14m9s
Build Packages / build:jfjoch:rocky8:nocuda (push) Successful in 16m25s
Build Packages / build:jfjoch:ubuntu2204:nocuda (push) Successful in 15m42s
Build Packages / build:jfjoch:rocky9:nocuda (push) Successful in 20m50s
Build Packages / build:jfjoch:ubuntu2404:nocuda (push) Successful in 20m36s
Build Packages / build:jfjoch:rocky8:cuda-sls9 (push) Successful in 22m18s
Build Packages / build:jfjoch:rocky9:cuda-sls9 (push) Successful in 23m29s
Build Packages / Generate python client (push) Successful in 30s
Build Packages / Build documentation (push) Successful in 1m10s
Build Packages / build:jfjoch:rocky8:cuda (push) Successful in 21m38s
Build Packages / build:jfjoch:ubuntu2204:cuda (push) Successful in 17m8s
Build Packages / build:jfjoch:rocky9:cuda (push) Successful in 23m10s
Build Packages / build:jfjoch:ubuntu2404:cuda (push) Successful in 19m16s
Build Packages / Unit tests (push) Successful in 2h8m4s
Build Packages / Validation Battery (push) Successful in 40m53s
* Rugnux: Processes serial crystallography data from XFELs - SACLA (MPCCD), PAL-XFEL and European XFEL (CXI), LCLS (XTC) and SwissFEL Alvra (JUNGFRAU with a CrystFEL module geometry) - with several files or Jungfraujoch master files merged in one run (`rugnux *_master.h5`). * Rugnux: Stills processing takes a known unit cell and space group as a starting point, finds the beam centre (and, with a cell, the detector distance) from the images, detects the saturation level in other facilities' files and refines the placement of individual detector panels. * Rugnux: The stills report gives R_split and CC1/2 from frame half-sets, comparable with CrystFEL. * jfjoch_viewer: Opens the same XFEL file formats. * Validation: A stills battery checks Rugnux against deposited structures from SACLA, PAL-XFEL, LCLS, European XFEL and SwissFEL. * Rugnux: More reliable convergence of rotation scaling, and live molecular replacement starts as soon as the model is uploaded. * jfjoch_broker: Initialize clears the previous dataset's bearer tokens, image buffer and live Rugnux status, and a slow CUDA JIT cache is reported at start. Reviewed-on: #88 Co-authored-by: Filip Leonarski <filip.leonarski@psi.ch>
69 lines
2.6 KiB
C++
69 lines
2.6 KiB
C++
// SPDX-FileCopyrightText: 2025 Filip Leonarski, Paul Scherrer Institute <filip.leonarski@psi.ch>
|
|
// SPDX-License-Identifier: GPL-3.0-only
|
|
|
|
#ifndef JFJOCHIMAGEREADER_H
|
|
#define JFJOCHIMAGEREADER_H
|
|
|
|
#include <unordered_set>
|
|
#include <map>
|
|
#include <mutex>
|
|
|
|
#include "../common/JFJochMessages.h"
|
|
#include "../common/Plot.h"
|
|
#include "../common/ROIBox.h"
|
|
#include "../common/DiffractionExperiment.h"
|
|
#include "JFJochReaderDataset.h"
|
|
#include "JFJochReaderImage.h"
|
|
#include "JFJochReaderSpots.h"
|
|
|
|
class JFJochReader {
|
|
// Reads each of its inputs' frames through them (JFJochMultiReader.h).
|
|
friend class JFJochMultiReader;
|
|
|
|
mutable std::mutex m;
|
|
std::shared_ptr<JFJochReaderDataset> dataset;
|
|
|
|
virtual bool LoadImage_i(std::shared_ptr<JFJochReaderDataset> &dataset,
|
|
DataMessage& message,
|
|
std::vector<uint8_t> &buffer,
|
|
int64_t image_number,
|
|
bool update_dataset) = 0;
|
|
|
|
mutable std::mutex summation_mutex;
|
|
void SummationThread(int64_t image0,
|
|
int64_t n_image,
|
|
int64_t image_jump,
|
|
JFJochReaderImage &image);
|
|
protected:
|
|
void SetStartMessage(const std::shared_ptr<JFJochReaderDataset> &val);
|
|
DiffractionExperiment default_experiment;
|
|
public:
|
|
virtual ~JFJochReader() = default;
|
|
|
|
JFJochReader& Experiment(const DiffractionExperiment& experiment);
|
|
|
|
std::shared_ptr<const JFJochReaderDataset> GetDataset() const;
|
|
[[nodiscard]] virtual uint64_t GetNumberOfImages() const = 0;
|
|
|
|
virtual void Close() = 0;
|
|
|
|
std::shared_ptr<JFJochReaderImage> LoadImage(int64_t image_number, int64_t summation_factor = 1);
|
|
|
|
void UpdateGeomMetadata(const DiffractionExperiment& experiment);
|
|
void UpdateUserMask(const std::vector<uint32_t>& mask);
|
|
|
|
// Read one image into a raw image the caller owns, false where there is nothing to read. A
|
|
// worker that walks a whole sweep hands the same object back on every frame and so keeps its
|
|
// buffer: GetRawImage() allocates a fresh one per call, which on a 4-byte 16 Mpx frame is 72 MB
|
|
// of untouched pages the decoder then faults in one by one, measurably more than the decode.
|
|
virtual bool ReadRawImage(int64_t image_number, JFJochReaderRawImage &image) = 0;
|
|
|
|
// The same image in a freshly allocated raw image.
|
|
std::shared_ptr<JFJochReaderRawImage> GetRawImage(int64_t image_number);
|
|
|
|
virtual std::vector<SpotToSave> ReadSpots(int64_t image) const = 0;
|
|
std::shared_ptr<JFJochReaderSpots> ReadAllSpots(int64_t start_image, int64_t end_image, int64_t stride = 1) const;
|
|
};
|
|
|
|
#endif //JFJOCHIMAGEREADER_H
|