Enable TOF imaging output

[KedoKudo]

Description of Pull Request

This PR introduces the following changes:

• add new configuration file type (JSON) and mark the old text based one depreciated
• fix output time unit in the neutron HDF5 output file (was output TPX3 internal time unit, instead of proper nano seconds)
• for existing command line application Sophiread, add new output type, TOF imaging
  • route 1: tpx3 --> hits --> neutrons --> tiff
  • route 2: tpx3 --> hits --> tiff
  • route 3: tiff <--+-- [tpx3 --> hits --> neutrons --> tiff], accumulating mode for continuous data acquisition

❯ ./Sophiread
[2024-08-21 15:45:16.534] [info] Usage: ./Sophiread -i <input_tpx3> -H <output_hits> -E <output_events> [-u <config_file>] [-T <tof_imaging_folder>] [-f <tof_filename_base>] [-m <tof_mode>] [-d] [-v]
[2024-08-21 15:45:16.534] [info] Options:
[2024-08-21 15:45:16.534] [info]   -i <input_tpx3>          Input TPX3 file
[2024-08-21 15:45:16.534] [info]   -H <output_hits>         Output hits HDF5 file
[2024-08-21 15:45:16.534] [info]   -E <output_events>       Output events HDF5 file
[2024-08-21 15:45:16.534] [info]   -u <config_file>         User configuration JSON file (optional)
[2024-08-21 15:45:16.534] [info]   -T <tof_imaging_folder>  Output folder for TIFF TOF images (optional)
[2024-08-21 15:45:16.534] [info]   -f <tof_filename_base>   Base name for TIFF files (default: tof_image)
[2024-08-21 15:45:16.534] [info]   -m <tof_mode>            TOF mode: 'hit' or 'neutron' (default: neutron)
[2024-08-21 15:45:16.534] [info]   -d                       Enable debug logging
[2024-08-21 15:45:16.534] [info]   -v                       Enable verbose logging
[2024-08-21 15:45:16.534] [error] Error: Missing required arguments

• add new auto reducer for VENUS's tpx3 detector

❯ ./venus_auto_reducer 
[2024-08-21 15:44:49.226] [info] Usage: ./venus_auto_reducer -i <input_dir> -o <output_dir> [-u <user_config_json>] [-f <tiff_file_name_base>] [-m <tof_mode>] [-c <check_interval>] [-v] [-d]
[2024-08-21 15:44:49.226] [info] Options:
[2024-08-21 15:44:49.226] [info]   -i <input_dir>    Input directory with TPX3 files
[2024-08-21 15:44:49.226] [info]   -o <output_dir>   Output directory for TIFF files
[2024-08-21 15:44:49.226] [info]   -u <config_file>  User configuration JSON file (optional)
[2024-08-21 15:44:49.226] [info]   -f <tiff_base>    Base name for TIFF files (default: tof_image)
[2024-08-21 15:44:49.226] [info]   -m <tof_mode>     TOF mode: 'hit' or 'neutron' (default: neutron)
[2024-08-21 15:44:49.226] [info]   -c <interval>     Check interval in seconds (default: 5)
[2024-08-21 15:44:49.226] [info]   -d                Debug output
[2024-08-21 15:44:49.226] [info]   -v                Verbose output
[2024-08-21 15:44:49.226] [error] Error: Missing required arguments

Purpose of work

The main objective of this PR is to enable TOF imaging output after the neutron event has been processed.
The instrument team has the following requirements:

• 2D histograms with tunable TOF binning parameters
• The 2D histograms can be from neutrons (for analysis) or hits (for quick check)
• A spectral file must be present along the corresponding TOF images (tiff format)

Test instructions

• check out the branch and setup/enable the dev environment
• build the branch and run unit test with ctest -V --output-on-failure
• run the following code
  • ./Sophiread -i data/HV2700_1500_500_THLrel_274_sophy_chopper_60Hz_4.1mm_aperture_siemen_star_120s_000000.tpx3 -T tiffout_hit -m hit -v -d
  • ./Sophiread -i data/HV2700_1500_500_THLrel_274_sophy_chopper_60Hz_4.1mm_aperture_siemen_star_120s_000000.tpx3 -T tiffout_neutron -m neutron -v -d`
• verify we have 1500 tiff images and a tof_image_Spectra.txt file in the folder
• return the previous code
• verify that the count in tof_image_Spectra.txt is doubled (accumulating mode)

EWM item: Story 6682

[peterfpeterson]

Looks good enough. Some issues were created in the repository for some follow up work.