NAME

       calibration - GUI tool for determining the geometry of a detector using a reference sample.

DESCRIPTION

       usage: pyFAI-calib2 [options] input_image.edf

       Calibrate  the  diffraction setup geometry based on Debye-Sherrer rings images without a priori knowledge
       of your setup. You will need to provide a calibrant or a  "d-spacing"  file  containing  the  spacing  of
       Miller  plans  in  Angstrom  (in  decreasing order). Calibrants available: C14H30O, LaB6, Al, Si, quartz,
       CrOx, cristobaltite, Si_SRM640b, Si_SRM640c, NaCl,  Si_SRM640,  Si_SRM640d,  PBBA,  Cr2O3,  LaB6_SRM660a,
       mock, Si_SRM640a, CeO2, Au, LaB6_SRM660c, LaB6_SRM660b, ZnO, Si_SRM640e, AgBh, Ni, TiO2, alpha_Al2O3, CuO
       or search in the American Mineralogist database: http://rruff.geo.arizona.edu/AMS/amcsd.php

   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, --out FILE
              Filename where processed image is saved

       -v, --verbose
              switch to debug/verbose mode

       --debug
              Set logging system in debug mode

       --opengl, --gl
              Enable OpenGL rendering (else matplotlib is used)

       -c FILE, --calibrant FILE
              Calibrant name or file containing d-spacing of the reference sample (case sensitive)

       -w WAVELENGTH, --wavelength WAVELENGTH
              wavelength of the X-Ray beam in Angstrom.

       -e ENERGY, --energy ENERGY
              energy of the X-Ray beam in keV (hc=12.398419739640717keV.A).

       -P POLARIZATION_FACTOR, --polarization POLARIZATION_FACTOR
              polarization factor, from -1 (vertical) to +1  (horizontal),  default  is  None  (no  correction),
              synchrotrons are around 0.95

       -D DETECTOR_NAME, --detector DETECTOR_NAME
              Detector name (instead of pixel size+spline)

       -m MASK, --mask MASK
              file containing the mask (for image reconstruction)

       -p PIXEL, --pixel PIXEL
              size of the pixel in micron

       -s SPLINE, --spline SPLINE
              spline file describing the detector distortion

       -n NPT, --pt NPT
              file with datapoints saved. Example: basename.npt

       -i FILE, --poni FILE
              file containing the diffraction parameter (poni-file) [not used].

       -b BACKGROUND, --background BACKGROUND
              Automatic background subtraction if no value are provided [not used]

       -d DARK, --dark DARK
              list of comma separated dark images to average and subtract [not used]

       -f FLAT, --flat FLAT
              list of comma separated flat images to average and divide [not used]

       --filter FILTER
              select the filter, either mean(default), max or median [not used]

       -l DIST_MM, --distance DIST_MM
              sample-detector distance in millimeter. Default: 100mm

       --dist DIST
              sample-detector distance in meter. Default: 0.1m

       --poni1 PONI1
              poni1 coordinate in meter. Default: center of detector

       --poni2 PONI2
              poni2 coordinate in meter. Default: center of detector

       --rot1 ROT1
              rot1 in radians. default: 0

       --rot2 ROT2
              rot2 in radians. default: 0

       --rot3 ROT3
              rot3 in radians. default: 0

       --fix-wavelength
              fix the wavelength parameter. Default: Activated

       --free-wavelength
              free the wavelength parameter. Default: Deactivated

       --fix-dist
              fix the distance parameter

       --free-dist
              free the distance parameter. Default: Activated

       --fix-poni1
              fix the poni1 parameter

       --free-poni1
              free the poni1 parameter. Default: Activated

       --fix-poni2
              fix the poni2 parameter

       --free-poni2
              free the poni2 parameter. Default: Activated

       --fix-rot1
              fix the rot1 parameter

       --free-rot1
              free the rot1 parameter. Default: Activated

       --fix-rot2
              fix the rot2 parameter

       --free-rot2
              free the rot2 parameter. Default: Activated

       --fix-rot3
              fix the rot3 parameter

       --free-rot3
              free the rot3 parameter. Default: Activated

       --npt NPT_1D
              Number of point in 1D integrated pattern, Default: 1024

       --npt-azim NPT_2D_AZIM
              Number of azimuthal sectors in 2D integrated images.  Default: 360

       --npt-rad NPT_2D_RAD
              Number of radial bins in 2D integrated images.  Default: 400

       --qtargs QTARGS
              Arguments propagated to Qt

       --tilt Allow initially detector tilt to be refined (rot1, rot2, rot3). Default: Activated

       --no-tilt
              Deactivated tilt refinement and set all rotation to 0

       --saturation SATURATION
              consider all pixel>max*(1-saturation) as saturated and reconstruct them, default: 0 (deactivated)

       --weighted
              weight fit by intensity, by default not.

       --unit UNIT
              Valid units for radial range: 2th_deg, 2th_rad, q_nm^-1, q_A^-1, r_mm. Default: 2th_deg

       --no-gui
              force the program to run without a Graphical interface

       --no-interactive
              force the program to run and exit without prompting for refinements

       -r, --reconstruct
              Reconstruct image where data are masked or <0 (for Pilatus detectors or detectors with modules)

       -g GAUSSIAN, --gaussian GAUSSIAN
              Size of the gaussian kernel. Size of the gap (in pixels) between two consecutive rings, by default
              100 Increase the value if the arc is not complete; decrease the value if arcs are mixed together.

       --square
              Use square kernel shape for neighbor search instead of diamond shape

       The output of this program is a "PONI" file  containing  the  detector  description  and  the  6  refined
       parameters  (distance,  center,  rotation)  and  wavelength.  An  1D and 2D diffraction patterns are also
       produced. (.dat and .azim files)