NAME

       diff_tomo - CLI interface for diffraction tomography data reduction

DESCRIPTION

       usage: diff_tomo [options] -p ponifile imagefiles*

       Azimuthal  integration for diffraction tomography. Diffraction tomography is an experiment
       where 2D diffraction patterns are recorded while performing a 2D scan, one  (the  slowest)
       in  rotation  around  the  sample  center  and the other (the fastest) along a translation
       through the sample. Diff_tomo is a script (based on  pyFAI  and  h5py)  which  allows  the
       reduction  of this 4D dataset into a 3D dataset containing the rotations angle (hundreds),
       the translation step (hundreds) and the many diffraction angles (thousands). The resulting
       dataset  can  be opened using the PyMca ROItool where the 1d dataset has to be selected as
       last dimension. The output file aims at being NeXus compliant. This tool can be  used  for
       mapping  experiments  if  one  considers  the slow scan direction as the rotation. but the
       *diff_map* tool provides in addition a graphical user interface.

   positional arguments:
       FILE   List of files to calibrate

   options:
       -h, --help
              show this help message and exit

       -V, --version
              show program's version number and exit

       -o FILE, --output FILE
              HDF5 File where processed sinogram was saved, by default diff_tomo.h5

       -v, --verbose
              switch to verbose/debug mode, defaut: quiet

       -P FILE, --prefix FILE
              Prefix or common base for all files

       -e EXTENSION, --extension EXTENSION
              Process all files with this extension

       -t NTRANS, --nTrans NTRANS
              number of points in translation. Mandatory

       -r NROT, --nRot NROT
              number of points in rotation. Mandatory

       -c NDIFF, --nDiff NDIFF
              number of points in diffraction powder pattern, Mandatory

       -d FILE, --dark FILE
              list of dark images to average and subtract

       -f FILE, --flat FILE
              list of flat images to average and divide

       -m FILE, --mask FILE
              file containing the mask, no mask by default

       -p FILE, --poni FILE
              file containing the diffraction parameter (poni-file), Mandatory

       -O OFFSET, --offset OFFSET
              do not process the first files

       -g, --gpu
              process using OpenCL on GPU

       -S, --stats
              show statistics at the end

       If the number of files is too large, use double quotes "*.edf"

diff_tomo from pyFAI version 0.21.1: 20/01/2March 2022                               DIFF_TOMO(1)