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DIFF_TOMO(1) User Commands DIFF_TOMO(1)


diff_tomo - manual page for diff_tomo from pyFAI version 0.15.0: 30/01/2018


usage: diff_map [options] -p ponifile imagefiles* If the number of files is too large, use double quotes like "*.edf"

Azimuthal integration for diffraction imaging. Diffraction mapping is an experiment where 2D diffraction patterns are recorded while performing a 2D scan. Diff_map is a graphical application (based on pyFAI and h5py) which allows the reduction of this 4D dataset into a 3D dataset containing the two motion dimensions and the many diffraction angles (thousands). The resulting dataset can be opened using PyMca roitool where the 1d dataset has to be selected as last dimension. This result file aims at being NeXus compliant. This tool can be used for diffraction tomography experiment as well, considering the slow scan direction as the rotation.

positional arguments:

List of files to integrate. Mandatory without GUI

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 map will be saved. Mandatory without GUI
-v, --verbose
switch to verbose/debug mode, default: quiet
-P FILE, --prefix FILE
Prefix or common base for all files
Process all files with this extension
-t FAST, --fast FAST
number of points for the fast motion. Mandatory without GUI
-r SLOW, --slow SLOW
number of points for slow motion. Mandatory without GUI
-c NPT_RAD, --npt NPT_RAD
number of points in diffraction powder pattern. Mandatory without GUI
-d FILE, --dark FILE
list of dark images to average and subtract (comma separated list)
-f FILE, --flat FILE
list of flat images to average and divide (comma separated list)
-m FILE, --mask FILE
file containing the mask, no mask by default
-p FILE, --poni FILE
file containing the diffraction parameter (poni-file), Mandatory without GUI
-O OFFSET, --offset OFFSET
do not process the first files
-g, --gpu
process using OpenCL on GPU
-S, --stats
show statistics at the end
Use the Graphical User Interface
Do not use the Graphical User Interface
--config CONFIG
provide a JSON configuration file

Bugs: Many, see hereafter: 1)If the number of files is too large, use double quotes "*.edf" 2)There is a known bug on Debian7 where importing a large number of file can take much longer than the integration itself: consider passing files in the command line


The full documentation for diff_tomo is maintained as a Texinfo manual. If the info and diff_tomo programs are properly installed at your site, the command
info diff_tomo

should give you access to the complete manual.

February 2018 diff_tomo from pyFAI version 0.15.0: 30/01/2018