[gmx-users] tpbconv restart crashing on 3.3.1

David van der Spoel spoel at xray.bmc.uu.se
Sun Jun 10 17:15:29 CEST 2007

Alan Dodd wrote:
> Hello all,
> A recent simulation has been running on a cluster for a couple of weeks.  5.something-ns in it crashed due to a hardware glitch.  All perfectly understandable so far.
> The strange thing is, using tpbconv now results in a .tpr that crashes in the first step due to massive LINCS errors.  Even if you use the option -time to take the simulation way back, to say 0.5ns when it ought to still be fine, it still crashes.  Other simulations on the same hardware+software are running fine, other restarts from other jobs crashing at the same time have worked fine, so it doesn't look like a bug.  Any suggestions as to why LINCS errors could suddenly now prevent the simulation from running *any* of the steps that it previously ran just fine?  I just want a hint as to what we could have missed, really.
> Alan Dodd
> UoB
Did you give tpbconv the energy file as well?

David van der Spoel, PhD, Assoc. Prof., Molecular Biophysics group,
Dept. of Cell and Molecular Biology, Uppsala University.
Husargatan 3, Box 596,  	75124 Uppsala, Sweden
phone:	46 18 471 4205		fax: 46 18 511 755
spoel at xray.bmc.uu.se	spoel at gromacs.org   http://folding.bmc.uu.se

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