README.md

This directory is intended to store example images primarily for the purpose of testing dxtbx format classes.

DLS_I03_smargon_0001.cbf.gz

• Full CBF image from DLS beamline I03, with SmarGon goniometer installed dls/i03/data/2017/cm16791-5/20171123/SmarGon/rotation_calibration4/th1_O45_C45_P45_1_0001.cbf
• For testing FormatCBFFullPilatusDLS6MSN126

DLS_I23_P12M_thau_00001.cbf.gz

• miniCBF PILATUS 12M image from DLS beamline I23, with Kappa goniometer installed
• Original file: /dls/i23/data/2021/cm28128-3/TestThaumatin/20210617/TestThaumatin_1_4500eV/data_1_00001.cbf
• SynchWeb permalink: https://ispyb.diamond.ac.uk/dc/visit/cm28128-3/id/6392922

dlsnxs2cbf_therm_0001.cbf.gz

• miniCBF file converted from original .h5 file using dlsnxs2cbf
• Original file: https://zenodo.org/record/2616448/files/Therm_6_2_master.h5
• For testing FormatCBFMiniEigerDLS16MSN160

Gatan_float32_zero_array_001.dm4.gz

• DM4 format float32 image with the data array zero-filled to aid compression
• For testing FormatGatanDM4
• Based on an image provided by Sam Morris at NTU

SACLA-MPCCD-run266702-0-subset.h5

• This file contains first four images from run 266702-0 in CXIDB #33.
• See http://cxidb.org/id-33.html
• Provided by Takanori Nakane
• SACLA-MPCCD-run266702-0-subset-refined_experiments_level1.json: refined detector metrology from Rahel Woldeyes
• SACLA-MPCCD-run266702-0-subset-known_orientations.expt: indexing results from dials.stills_process

SACLA-MPCCD-Phase3-21528-5images.h5

• Courtesy of Takanori Nakane (2019)
• See also: cctbx/dxtbx#70 (comment)
• For testing FormatHDF5SaclaMPCCD

simtbx_FormatSMVJHSim_001.img

• A simulated lysozyme diffraction image with electron diffraction geometry
• Created with dev.dials.sim_ED_stills (from dials_scratch)
• For testing FormatSMVJHSim and electron diffraction indexing

ThermoFisher_EPU-D_1.5_001.mrc.gz

• MRC format image collected by Yun Song at eBIC
• This uses ThermoFisher EPU-D 1.5's FEI2 extended header, which includes comprehensive metadata describing the experiment geometry.

TIMEPIX_SU_512-stdgoni_0001.img

• Courtesy of Viktor Bengtsson (2019)
• For testing FormatSMVTimePix_SU_512x512

TIMEPIX_SU_516-stdgoni_0001.img

• Courtesy of Viktor Bengtsson (2019)
• For testing FormatSMVTimePix_SU_516x516

dectris_eiger_master.h5, dectris_eiger_data_000001.h5

• Semi-synthetic Dectris standard Nexus format single image data from an Eiger 9M detector.
• Created from , modified to contain only the first image from those data.
• Additionally, various detector metadata have been spoofed to reduce the size of the master file:
  • The first countrate_correction_lookup_table, countrate_correction_table, flatfield, pixel_mask and trimbit data sets of each detectorModule have been chunked in order to enable GZip compression.
  • Equivalent such data sets for the other 35 detector modules have been made hard links to those of the the first detector module.
  • The global flatfield and pixel_mask have also been chunked to enable compression.
  • To improve compressibility, the detector module flatfield and global flatfield values have all been set to 1, the detector module pixel_mask and global pixel_mask values have all been set to 0 and the detector module trimbit values have all been set to 16.
  • Dectris uses 32-bit unsigned integers to record the global and module pixel_mask values. Since only the five least significant bits are meaningful, the other 27 bits being undefined, a smaller data type would suffice. Accordingly, the data type has been changed to 8-bit unsigned integers.

endonat3_001.mar2300

• Example mar345 file
• Original source: Erskine, Peter, & Cooper, Jonathan. (2016). Atomic resolution X-ray diffraction images of native endothiapepsin. [Data set]. Zenodo. http://doi.org/10.5281/zenodo.196290