Or if you are connected to some cluster(running on different machine), mpirun command should work.<br>
Otherwise nohup mdrun -s -f -o.... & should work.<br><br><div><span class="gmail_quote">On 11/21/05, <b class="gmail_sendername">David Mobley</b> <<a href="mailto:dmobley@gmail.com">dmobley@gmail.com</a>> wrote:
</span><blockquote class="gmail_quote" style="border-left: 1px solid rgb(204, 204, 204); margin: 0pt 0pt 0pt 0.8ex; padding-left: 1ex;">I don't think & leaves processes running if you log off; it just runs them in the background.
<br>
<br>
Maybe try "nohup mdrun (usual options) &". <div><span class="e" id="q_107b4c54ef75ac40_1"><br>
<br>
<br><br><div><span class="gmail_quote">On 11/21/05, <b class="gmail_sendername">Sven Huttenhouse</b> <<a href="mailto:mdsimulation@hotmail.com" target="_blank" onclick="return top.js.OpenExtLink(window,event,this)">mdsimulation@hotmail.com
</a>> wrote:</span><blockquote class="gmail_quote" style="border-left: 1px solid rgb(204, 204, 204); margin: 0pt 0pt 0pt 0.8ex; padding-left: 1ex;">
<br>Thank you Dr. Erik<br><br>I used the following command:<br>mdrun -nive 0 -v -s ............ ener.edr &<br>and then I closed the x window I used and re opened it again. I tried to see<br>what programs are running in the cluster using top but I didn't find the
<br>mdrun running.<br><br>did I used the right command? should there be a space between ".edr" and<br>"&"?<br>any suggestion??<br><br><br>kind regards<br>Sven<br><br>>From: Erik Lindahl <<a href="mailto:lindahl@sbc.su.se" target="_blank" onclick="return top.js.OpenExtLink(window,event,this)">
lindahl@sbc.su.se</a>><br>>Reply-To: Discussion list for GROMACS users <<a href="mailto:gmx-users@gromacs.org" target="_blank" onclick="return top.js.OpenExtLink(window,event,this)">gmx-users@gromacs.org</a>>
<br>>To: Discussion list for GROMACS users <<a href="mailto:gmx-users@gromacs.org" target="_blank" onclick="return top.js.OpenExtLink(window,event,this)">
gmx-users@gromacs.org</a>><br>>Subject: Re: [gmx-users] General Questions abdout gromacs<br>>Date: Mon, 21 Nov 2005 19:33:44 +0100<br>><br>>Hi Sven,<br>><br>>On Nov 21, 2005, at 6:11 PM, Sven Huttenhouse wrote:
<br>><br>>><br>>>Thank you all for replying<br>>><br>>>What is the command that I have to use to run the mdrun in the backgroun?<br>><br>>Personally, I like the free program "GNU screen" that you can compile if
<br>>it isn't already installed. This gives you access to multiple virtual<br>>terminals that can be detached and later reattached to see the output.<br>><br>>Alternatively you can just use "&" at the end of a command to run it in
<br>>the background.<br>><br>>>where can I learn (read more) about LINCS or SHAKE??<br>>><br>><br>>See the manual. Gromacs constraints use LINCS by default.<br>><br>>Cheers,<br>><br>>Erik
<br>><br>>-----------------------------------------------------------<br>>Erik Lindahl <<a href="mailto:lindahl@sbc.su.se" target="_blank" onclick="return top.js.OpenExtLink(window,event,this)">lindahl@sbc.su.se
</a>><br>>Assistant Professor, Stockholm Bioinformatics Center
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