From: Peter Freddolino (petefred_at_ks.uiuc.edu)
Date: Thu Mar 05 2009 - 02:15:57 CST
could you be a bit more specific about what they said about using bsub?
The lonestar user guide is fairly clear about bsub being the correct way
to submit jobs. I have used the runbatch script on lonestar successfully
as recently as about 6 months ago, but haven't had time on lonestar lately.
You may wish to try starting an interactive run
(http://www.tacc.utexas.edu/services/userguides/lonestar/ under "Running
Code") and then executing the ibrun command that is found in the
runbatch script and seeing if you get the same result (and any
Ali Emileh wrote:
> Hi everyone,
> I have been trying to run a job on Lonestar with no success yet. None of
> the module swap command
> that the NAMDWiki article asks to use or the touch .nosoft command
> works. I tried to use the runbatch
> command which I think is in another user's directory (the one pointed
> to, in NAMDWiki, tg455591).
> It does work but terminates without any warning or error, pretty early
> in the run , saying it was 'killed
> by a signal external to LSF'. Contacting the support staff @ Teragrid I
> was told that using BSUB cmmand is not the right
> way to submit jobs and you should use the modules. But loading the NAMD
> module only sets up
> env variables. I don't know what is the command that actually runs namd.
> Reading the Lonestar documents, it seems that "ibrun" is the command
> that uses the different #BSUB
> options to run jobs but I can't figure out how to connect these bits
> together. Has anyone tried to use
> Lonestar using the runbatch script there? Any guidance will be highly
> Thank you,
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