Re: AMBER: anal vs sander

From: David A. Case <case.scripps.edu>
Date: Fri, 27 Jan 2006 15:28:51 -0800

On Fri, Jan 27, 2006, Piotr Cieplak wrote:

> No, I used eps 1.0. The input for anal is as follows:
>
> test of anal energies
> 1 0 0 0 0 1
> 0 0.0 0.0 0.0 0.0
> 1 0 0 0 0 0
                              ^^^^^

You are setting idiel=0 in anal, which means a distance-dependent dielectric.
But GB uses a constant dielectric. Try setting this value to 1.

[Of course, this awful user interface is one reason anal should be headed for
the junkpile. But the promised replacements have been slow in arriving....]

....dac

-----------------------------------------------------------------------
The AMBER Mail Reflector
To post, send mail to amber.scripps.edu
To unsubscribe, send "unsubscribe amber" to majordomo.scripps.edu
Received on Sat Jan 28 2006 - 06:10:07 PST
Custom Search