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CALIBRATION(1) User Commands CALIBRATION(1)

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: alpha_Al2O3, Au, Cr2O3, CrOx, Si_SRM640c, LaB6_SRM660c, Al, TiO2, Si_SRM640, cristobaltite, Si, NaCl, Si_SRM640e, LaB6_SRM660a, C14H30O, LaB6_SRM660b, Si_SRM640b, Ni, ZnO, mock, AgBh, Si_SRM640d, Si_SRM640a, CeO2, PBBA, quartz, LaB6, 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)

March 2020 calibration from pyFAI version 0.19.0: 31/01/2020