Re: [AMBER-Developers] [ [AMBER] Has anyone tried VMD in the second step of tutorial A1?]

From: B. Lachele Foley <>
Date: Wed, 16 Sep 2015 00:19:01 +0000

I suspect that a lot of the underlying functionality is already, or before long will be, in GMML. And, indeed, that is the point of GMML -- to provide a software infrastructure onto which folks can build whatever else they need.

Anyhow, if someone wanted to work with us, that would be cool. If such individual(s) had a little money, that would be even better.

:-) Lachele

Dr. B. Lachele Foley
Associate Research Scientist
Complex Carbohydrate Research Center
The University of Georgia
Athens, GA USA

From: Ross Walker <>
Sent: Tuesday, September 15, 2015 2:51 PM
To: AMBER Developers Mailing List
Subject: Re: [AMBER-Developers] [ [AMBER] Has anyone tried VMD in the second step of tutorial A1?]

VMD can't do most of this - that was the nice thing about Sirius - it allowed you to do lots of cool things moving molecules relative to each other etc. It sucks it died because the funding ran out. :-(

Last time I looked (many years ago I might add) it was the only non-comercial program that supported this sort of functionality. Things might have changed though and it would be great if someone could research a suitable tool for doing this sort of thing. Or if someone perhaps wants to 'volunteer' to resurrect Sirius? :-S

All the best

> On Sep 15, 2015, at 11:43 AM, David A Case <> wrote:
>> I'm trying to reproduce the step 2 of AMBER A1 tutorial with VMD
>> ( because
>> Sirius is no longer available.
> It would be great to get a volunteer to update this tutorial. Just saying...
> ...thx...dac
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Received on Tue Sep 15 2015 - 17:30:03 PDT
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