In each Unix computer used for KappaCCD integration and processing there are two directories
containing calibration files:
/usr/local/hklint/<detid> containing calibration files for
the HKL system (denzo/scalepack)
/usr/local/calibration/<detid> containing calibration files for
Nonius software (collect/EvalCCD)
In both of these names, <detid> stands for your 4 digit detector ID.
This setup makes it possible to have calibration files for more than one detector,
and automatically select the appropriate set.
HKL Calibration files
The following files should be in the HKL calibration directory:
def.cal
Contains the definition of the "distortion polynomial", mapping the
ccd pixels to a 2D position on the detector. This allows the HKL
programs to correct for the distortion caused by the fiber-optic
taper. The file also contains a line defining the standard
uncertainties in reflection positions and integrated intensities
obtained for a good AMBI data collection, such that denzo can print
out "chi**2" values. The file should not contain any other denzo
statements.
def.site
The "site definition file". This contains some "fixed" values about
your setup like the primary beam position, the detector misalignment
angles, wavelength, and beam polarisation.
sensi*.kcd
The "sensitivity file", containing a correction map for the
sensitivity of each pixel on the detector. Each pixel in this
synthetic image contains a "multiplication factor" that brings the
measured intensity at that place of the detector to an absolute scale.
For unreliable or dead pixels in the CCD (e.g. outside of the active
taper area) this file contains a 0 multiplication factor. The software
makes sure such pixels will never be used in integrations. The
"sensitivity file" must be the only ".kcd" file in the HKL calibration
directory.
Nonius Calibration files
The following files can be in the Nonius calibration directory. None of these
is required for integration using denzo.
MO-incidence.coefficient
An intensity correction factor for the thickness of the phosphor layer.
badpixel.dark
A list of more-or-less unreliable pixels identified from a repeated long shutter closed exposure.
badpixel.sdark
A list of more-or-less unreliable pixels identified from a repeated short shutter closed exposure.
dark.kcd_frozen
Synthetic dark current correction image.
sdark.kcd_frozen
Synthetic "non-empty pixel" correction image.
distorpol.vic
Distortion correction polynomial.
detalign.vic
Detector alignment parameters and impact position of the primary beam at theta zero.
