From: Peter Freddolino (petefred_at_umich.edu)
Date: Sat Jan 30 2016 - 19:28:40 CST

(The solvate docs also have info on this: http://www.ks.uiuc.edu/Research/vmd/plugins/solvate/
That page has been missed in some previous threads)
> On Jan 29, 2016, at 3:18 PM, Maxim Belkin <mbelkin_at_ks.uiuc.edu> wrote:
>
> 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
>>>
>
>