Re: running NAMD2 in parallel

From: dimka (newyorkdimka_at_gmail.com)
Date: Mon Oct 10 2005 - 23:33:59 CDT

make sure you can connect to the node, rsh or ssh to it from the master node.

On 10/10/05, Gan, Yong (UMC-Student) <yg8p2_at_mizzou.edu> wrote:
>
> I follow Leonardo's method. But I got
>
> Charmrun> charmrun started...
> Charmrun> using ./nodelist as nodesfile
> Charmrun> rsh (node3:0) started
> Charmrun> rsh (node4:1) started
> Charmrun> node programs all started
> Charmrun> error 0 attaching to node:
> Timeout waiting for node-program to connect
>
> Yong
>
>
>
> -----Original Message-----
> From: Leonardo Sepulveda Durán [mailto:leonardosepulveda_at_gmail.com]
> Sent: Mon 10/10/2005 10:03 PM
> To: Gan, Yong (UMC-Student)
> Cc: namd-l_at_ks.uiuc.edu
> Subject: Re: namd-l: running NAMD2 in parallel
>
> I dont use NFS, so I have to create first the same directory where i
> have my inputs in every node (only the folder, it is not necesary to
> copy the files). When I dont do that, a "Cannot propagate this
> current directory" error is evocked. I know, is not the most elegant
> way to do it, nevertheless it works. If someone knows wich is the
> problem IN MY CASE, please let me know.
>
> Leonardo
>
> On 10/10/05, Gan, Yong (UMC-Student) <yg8p2_at_mizzou.edu> wrote:
> >
> > Hello,
> >
> > I tried to run namd2.6b1 on 2 nodes. I was told that
> >
> > /bin/sh: line 35: cd: /home/yg8p2/popc160: No such file or directory
> >
> > and the log file said
> >
> > Charmrun rsh(node3.0)> Cannot propagate this current directory:
> > Charmrun rsh(node3.0)> /home/yg8p2/popc160
> > Charmrun rsh(node3.0)> Exiting with error code 1
> >
> >
> > My nodelist is
> >
> > group main
> > host node3
> > host node4
> >
> >
> > Could you tell me how to fix it?
> >
> >
> > Thanks a lot!!!
> >
> >
> > Yong
> >
> >
>
>
> --
> ~~~~~~~~~~~~~~~~~~~~~~~~~
> Leonardo Andres Sepúlveda Durán
> Graduado de Bioquimica
> Universidad de Chile
> ~~~~~~~~~~~~~~~~~~~~~~~~~
> Manuel Antonio Maira 987 depto. # 302
> Providencia
> Santiago
> Chile
> Codigo postal: 752-0249
> ~~~~~~~~~~~~~~~~~~~~~~~~~
>
>
>

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