Man page of X-GEN
Section: X-GEN Commands (1)
Updated: April 2005
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X-GEN - filterc
[-acehs] [-dval ... ]
"filterc" is a non-interactive filter for CENTROIDS files. It reads
a CENTROIDS file and writes out another one whose environment
variable name is CENOUT, from which some of the observations have
been deleted. Normally only observations that have errors in h, k, l,
X, Y, or phi greater than a certain value removed from the output.
The error limits are the ones set in a run of "refine" or "refine1".
The resolution cutoffs, the integerness error checks, and the
(X,Y,omega) error checks in `filterc' can only be applied if a UPARAMS
file exists, i.e. if the crystal and detector parameters are
known. The "complement" function applies only to reflections
that violate the integerness and (X,Y,omega) rules, not the
other rules. Thus if filterc is invoked with -c and a reflection
violates the monotonicity or sharpness criteria, it will not be output.
This "complement" option does deletions, but only for
observations with DO satisfy the (X,Y,omega,h) criteria for
acceptance or that DO NOT satisfy the rules regarding minimum
intensity, resolution limits, monotonicity, intensity, and
nearness to neighbors. Violators of the (X,Y,omega,h) error rules
are retained. This provides a method of separating the reflections
belonging to one lattice from the ones belonging to another lattice.
Compute the indices hkl and the predicted values of
(X,Y,omega) for each reflection. Check the integerness of the hkl
values against the index error limit and the size of the |Xp-Xob|,
|Yp-Yob|, |omega(p)-omega(ob)| against the (X,Y,omega) error
limits. This is the default behavior of the program.
Do not check for integerness or (X,Y,omega) errors.
For each observed reflection, determine the relative plane
spacing between it and all other reflections in the list.
If that relative plane spacing is less than , delete both
reflections from the list.
Default: 10000 Angstroms, i.e., no restriction.
Delete all reflections whose intensity is smaller than
<val>. Default: -10000, i.e., no restriction.
Lower-resolution cutoff is <val>. Default: 10000 Angstroms,
i.e., no restriction.
Examine the omega profile of each reflection to see if it
increases monotonically upward to the peak and then decreases
monotonically downward. If it does not, and in particular
if the fraction of the profile that violates this monotonic
behavior is larger than <val>, delete the reflection.
Thus if <val> = 0.1, this normalized profile:
0.01 0.10 0.09 0.45 1.0 0.7 0.15
would be allowed, because the non-monotonic "bump"
(0.10 - 0.09) is only 0.01, whereas
0.01 0.20 0.09 0.45 1.0 0.7 0.15
would be disallowed. Default: 1, i.e. no restriction.
Delete very sharp peaks. If the second-largest element in
the omega profile is smaller than <val> * the largest element,
the reflection is considered too sharp and should be deleted.
Default: 0, i.e. no restriction.
Upper-resolution cutoff. Default: 0, i.e. no restriction.
- filterc -hm0.1
Eliminate reflections whose (X,Y,omega) or (h,k,l)
errors errors are too large,
and also those that are non-monotonic.
- filterc -cn0.08
Eliminate reflections that do satisfy the current
orientation matrix, and also those that are very sharp.
Report bugs to Andy Howard at email@example.com or 312-567-5881.
Copyright © 2002, Illinois Institute of Technology.
See the file 'LICENSE' for information on usage and redistribution
of this file, and for a DISCLAIMER OF ALL WARRANTIES
- REPORTING BUGS
This document was created by
using the manual pages.
Time: 02:08:09 GMT, October 03, 2005