[gmx-users] How to create a box of molecules with three layers?

[Justin Lemkul]

On 9/20/12 7:27 AM, Ali Alizadeh wrote:
> Dear Justin
>
> For example, In that tutorial(box vector : 3 , 3 , 10),
>
> At first, I add cyclo hexane into my system( center: 3 ,3 ,1)
> Then I add water with certain certain thickness(center: 3 , 3 , 5)
> Then I want to add cyclo hexane into my system( center: 3 ,3 , 8)
>
> Is it possible? How to?
>

The logic for doing this is described explicitly in the tutorial:

http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin/gmx-tutorials/biphasic/02_construct.html

-Justin

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Justin A. Lemkul, Ph.D.
Research Scientist
Department of Biochemistry
Virginia Tech
Blacksburg, VA
jalemkul[at]vt.edu | (540) 231-9080
http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin

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