AMBER Archive (2005)

Subject: Re: AMBER: Copyright for PBSA

From: David A. Case (case_at_scripps.edu)
Date: Sat May 21 2005 - 22:37:45 CDT

On Sat, May 21, 2005, Cenk Andac wrote:

> I used the PBSA module of AMBER8 to complete my thesis
> work. Hence, I would like to cite PBSA in my thesis in
> some way.

The manual section on "Poisson-Boltzmann dynamics" (section 5.16) has
references to papers that describe in detail the methods used. The paper
by Lu and Luo is probably the most informative.

> I have read the following copyright notice:
>
>
> This software provided pursuant to a license
> agreement containing restrictions on its
> disclosure, duplication, and use. This
> software contains confidential and proprietary
> information, and may not be extracted or
> distributed, in whole or in part, for any purpose
> whatsoever, without the express written permission
> of the authors....
>
> I was wondering if users are allowed to divulge the PB
> equations (implemented in the PBSA module) with a
> permission.

The license refers to redistributing the _code_, not to referring to the
equations that are used. You may of course discuss the PB equations that are
the basis for the computer code.

...dac

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