[gmx-users] Re: xmgrace plot

Tue Dec 8 12:42:02 CET 2009

Dear Henry,

For Plot two .xgv files u can use following command

*xmgrace file1.xvg file2.xvg*

colour will come automatically in above case i think file1.xvg will be in
BLACK and file2.xvg will be in RED (Its default), You can change aslo.
U can add other .xvg file accordingly in above command to get plot for all
the .xvg files in a single graph :)

Regards
Rituraj

On Tue, Dec 8, 2009 at 4:30 PM, <gmx-users-request at gromacs.org> wrote:

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> Today's Topics:
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>   1. mpispawn.c:303 Unexpected exit status (shivkumar bale)
>   2. gromacs.. (Henry Ynag)
>   3. Re: Two Types of van de Waals interactions in one system
>      (XAvier Periole)
>   4. xmgrace plot (Henry Yang)
>   5. Re: xmgrace plot (Jon Fuller)
>
>
> ----------------------------------------------------------------------
>
> Message: 1
> Date: Mon, 7 Dec 2009 23:15:44 -0600
> From: shivkumar bale <kumarbale at gmail.com>
> Subject: [gmx-users] mpispawn.c:303 Unexpected exit status
> To: gmx-users at gromacs.org
> Message-ID:
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> Message: 2
> Date: Tue, 8 Dec 2009 01:19:16 -0800 (PST)
> From: Henry Ynag <henryynag at yahoo.com>
> Subject: [gmx-users] gromacs..
> To: gmx-users at gromacs.org
> Message-ID: <903781.22164.qm at web113919.mail.gq1.yahoo.com>
> Content-Type: text/plain; charset="us-ascii"
>
> Hello everyone,
>
> I am quite new to gromacs. I would like to know how can  I calculate the
> area per lipid for my simulations. I am running simulations with 128 DMPC
> lipid bilayer. I have the output of 30 ns simulations.  Also how can i make
> a graph with this output.
>
> Any help!
>
> Henry
> Biochemistry
>
>
>
>
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> Message: 3
> Date: Tue, 8 Dec 2009 10:52:00 +0100
> From: XAvier Periole <x.periole at rug.nl>
> Subject: Re: [gmx-users] Two Types of van de Waals interactions in one
>        system
> To: Discussion list for GROMACS users <gmx-users at gromacs.org>
> Message-ID: <7ECBCABE-B1AF-45E5-9723-1D87364FBF9B at rug.nl>
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>
>
> One solution would be to use tabulated potential for which the
> analytical form does not matter.
>
> On Dec 8, 2009, at 4:29 AM, Mark Abraham wrote:
>
> > hong bingbing wrote:
> >> Dear all,
> >> Has anyone tried to use 2 van de Waals interaction types in one
> >> system? For example, the system includes two components A and B.
> >> The van de Waas interaction for A is LJ type, while for B
> >> Buckingham form is used. Can GROMACS support two forms
> >> simultaneously?
> >
> > No. How would you describe the vdW interaction between an atom from
> > A and one from B?
> >
> > If the reason for this question is based on a desire to mix two
> > force fields - don't.
> >
> > Mark
> > --
> > gmx-users mailing list    gmx-users at gromacs.org
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>
> ------------------------------
>
> Message: 4
> Date: Tue, 8 Dec 2009 02:51:12 -0800 (PST)
> From: Henry Yang <henryynag at yahoo.com>
> Subject: [gmx-users] xmgrace plot
> To: gromacs <gmx-users at gromacs.org>
> Message-ID: <975347.17369.qm at web113912.mail.gq1.yahoo.com>
> Content-Type: text/plain; charset="us-ascii"
>
> Hello everyone,
>
> I am also new to xmgrace. I have two .xvg file which I have got from the
> simulation data analysis.  How can I open both of them in one xmgrace graph
> with two distinct color? How can I proceed with the comand?
>
> I know this is very basic but I have to learn!
> Pls give me response.
>
> Henry
> Biochemistry
>
>
>
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> ------------------------------
>
> Message: 5
> Date: Tue, 8 Dec 2009 10:53:25 +0000
> From: Jon Fuller <jonathan.fuller at gmail.com>
> Subject: Re: [gmx-users] xmgrace plot
> To: Discussion list for GROMACS users <gmx-users at gromacs.org>
> Message-ID:
>        <76dd1c620912080253t6b8ce2dehfa65e42bda43a231 at mail.gmail.com>
> Content-Type: text/plain; charset="iso-8859-1"
>
> >From the command line you can type xmgrace file1.xvg file2.xvg (where
> file1
> and file2 are the filenames!).
>
> Jon
>
> 2009/12/8 Henry Yang <henryynag at yahoo.com>
>
> > Hello everyone,
> >
> > I am also new to xmgrace. I have two .xvg file which I have got from the
> > simulation data analysis.  How can I open both of them in one xmgrace
> graph
> > with two distinct color? How can I proceed with the comand?
> >
> > I know this is very basic but I have to learn!
> > Pls give me response.
> >
> > Henry
> > Biochemistry
> >
> >
> >
> > --
> > gmx-users mailing list    gmx-users at gromacs.org
> > http://lists.gromacs.org/mailman/listinfo/gmx-users
> > Please search the archive at http://www.gromacs.org/search before
> posting!
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> > www interface or send it to gmx-users-request at gromacs.org.
> > Can't post? Read http://www.gromacs.org/mailing_lists/users.php
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-- 
--------------------------------------------------------------------------------------------------
RITURAJ PUROHIT
Assistant Professor, Bioinformatics Division
School of Bio-sciences and Technology (SBST)
Vellore Institute of Technology, University
Address: SBST, VIT University, Vellore-632014,Tamilnadu, India.
Phone: +91-416-2202638 (Lab), +91-9944649073 (Mobile)
Fax; +91-416-2243092, E-mail: rituraj at vit.ac.in
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"The future belongs to those who believe in the beauty of their dreams."
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