From: Maxim Belkin (mbelkin_at_ks.uiuc.edu)
Date: Fri Jan 29 2016 - 14:18:57 CST

Sorry, my mistake:

solvate -minmax {{-50 -50 -50} {50 50 50}} -o water_box

For non-standard solvent you can use solvate too. Just type solvate and it should give you help on that. VMD mailing list should have the info you are looking for.
 

Maxim

> On Jan 29, 2016, at 13:36, Olya Kravchenko <ovkrav_at_gmail.com> wrote:
>
> Thanks a lot!!
>
> After running this command
>
> solvate -minmax {{-50 50 -50} {50 50 50}} -o water_box
>
> I am getting the following error:
>
> Couldn't load output files. Please make sure that you have enough disk
> space, and that you didn't set solvent box boundaries that would
> produce zero placed waters.
>
> How should I address it?
>
> Also, is there a way to create a box filled with atoms/molecules other
> than water?
>
>
> On Fri, Jan 29, 2016 at 2:26 PM, Maxim Belkin <mbelkin_at_ks.uiuc.edu> wrote:
>> package require solvate
>> solvate -minmax {{-50 -50 -50} {50 50 50}} -o water_box
>>
>>
>>
>>> On Jan 29, 2016, at 13:17, Olya Kravchenko <ovkrav_at_gmail.com> wrote:
>>>
>>> Hi all,
>>>
>>> I would like to create a simple rectangular simulation box filled with
>>> spherical particles (such as Argon atoms) for testing purposes. What
>>> would be the easiest way to create such system? Is it even possible
>>> with vmd or namd?
>>>
>>> At this point, I can only think of using a solvate plugin and creating
>>> a box around small protein, then deleting the protein and
>>> equilibrating the box without it, but this doesn't seem optimal. Is
>>> there another plugin/method that would be more suitable?
>>>
>>> Thanks in advance!
>>>
>>> Olga
>>