yes, they are switched in the amber9 manual.
fitmask is for the atoms to use for the best-fit,
rmsmask is the atoms for the actual rmsd calculation.
On 7/9/07, Holly Freedman <freedman.phys.ualberta.ca> wrote:
> Dear AMBER support,
>
> I believe that there is a mistake in the AMBER 8 and 9 manuals when describing tgtrmsmask and
> tgtfitmask, the definitions seem to be reversed. This is my impression from reading posts by Viktor
> Hornak on the AMBER reflector and also from my recent experience trying the TMD option. Am I right
> about this?
>
> Thanks,
> Holly
>
>
> --
> Department of Physics, University of Alberta
> Edmonton CANADA
>
> -----------------------------------------------------------------------
> The AMBER Mail Reflector
> To post, send mail to amber.scripps.edu
> To unsubscribe, send "unsubscribe amber" to majordomo.scripps.edu
>
-----------------------------------------------------------------------
The AMBER Mail Reflector
To post, send mail to amber.scripps.edu
To unsubscribe, send "unsubscribe amber" to majordomo.scripps.edu
Received on Wed Jul 11 2007 - 06:07:44 PDT
