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

   optional arguments:
       -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"