Re: [AMBER] ambpdb problems

From: Jason Swails <>
Date: Tue, 16 Oct 2012 13:17:24 -0400

On Tue, Oct 16, 2012 at 10:59 AM, Pyle, Ronald <> wrote:

> Help!! I have been running a simulation on a ssDNA 10mer. Everything has
> been working fine with my scripts and all input files. All the output files
> seem fine! I set the simulation up to run for a couple of days then take a
> look at the output using the ambpdb command to generate a pdb file from the
> rst file. I then start the simulation again to get a longer simulation, but
> I am now getting the error message below and the pdb file that is created
> is empty. I can see that something is wrong with the rst file created,
> because no additional output files are created from this rst file. What is
> causing the hangup and how can I fix it??

Are there ***s in the restart file?

Jason M. Swails
Quantum Theory Project,
University of Florida
Ph.D. Candidate
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Received on Tue Oct 16 2012 - 10:30:07 PDT
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