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Hey, <br>
<br>
you want to install gnuplot on your local system. As most of the
analysis, plotting is most<br>
likely done on our local machine. <br>
<br>
Without knowledge of your system this is just a stab in the dark. <br>
For linux, open a terminal and type<br>
sudo apt-get install gnuplot <br>
or open the software install panel from the menu and install it from
there. <br>
<br>
If you have no sudo rights on your machine, you will either have to
install it manually or<br>
ask your sys admin to help you. <br>
<br>
T.<br>
<br>
<br>
<br>
On 2/6/11 10:43 AM, delara aghaie wrote:
<blockquote cite="mid:226235.27664.qm@web130107.mail.mud.yahoo.com"
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Dear gromacs users</div>
<div>I am using hpc system of our university to work on
molecular dynamics simulation with gromacs. The gormacs
has been installed there and I can connect to the hpc
system and submit my jobs.</div>
<div>Now I want to know that for using gnuplot to have my
graphs, the gnuplot program should be installed on my
office pc or on the hpc system and let me know how to do
that? If it should be installed on hpc let me know pls.
how should it be installed ? </div>
<div>Thanks for your time</div>
<div>D.M<br>
--- On <b>Sat, 2/5/11, Justin A. Lemkul <i><a class="moz-txt-link-rfc2396E" href="mailto:jalemkul@vt.edu"><jalemkul@vt.edu></a></i></b>
wrote:<br>
</div>
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border-left: 2px solid rgb(16, 16, 255);"><br>
From: Justin A. Lemkul <a class="moz-txt-link-rfc2396E" href="mailto:jalemkul@vt.edu"><jalemkul@vt.edu></a><br>
Subject: Re: [gmx-users] Porting Amber parmbsc0 force
field to Gromacs<br>
To: "Discussion list for GROMACS users"
<a class="moz-txt-link-rfc2396E" href="mailto:gmx-users@gromacs.org"><gmx-users@gromacs.org></a><br>
Date: Saturday, February 5, 2011, 8:53 PM<br>
<br>
<div class="plainMail"><br>
<br>
william Stebbeds wrote:<br>
> Hello,<br>
> <br>
> I would like to use the parmbs0 Amber forcefield
to Gromacs, specifically the nucleic acid parameters.<br>
> <br>
> Is this likely to come in a future release?<br>
> <br>
<br>
Force fields are only implemented if a developer has a
compelling reason to do so, and then take the time to
validate it. As such, new force fields are not often
introduced.<br>
<br>
> I appreciate that this will likely be a difficult
process but if anyone can point me in the right
direction I would be very grateful.<br>
> <br>
<br>
You can probably take an existing Amber force field
and modify it. Chapter 5 is your friend here. By
modifying existing files, you don't have to come up
with all the syntax by yourself.<br>
<br>
-Justin<br>
<br>
> Will - Cranfield University<br>
> <br>
<br>
-- ========================================<br>
<br>
Justin A. Lemkul<br>
Ph.D. Candidate<br>
ICTAS Doctoral Scholar<br>
MILES-IGERT Trainee<br>
Department of Biochemistry<br>
Virginia Tech<br>
Blacksburg, VA<br>
jalemkul[at]vt.edu | (540) 231-9080<br>
<a moz-do-not-send="true"
href="http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin"
target="_blank">http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin</a><br>
<br>
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