[gmx-users] Out of Disk Space

[Christopher Neale]

It could be a quota issue (there is free space, but your group has used its entire allocation). Also, file systems often have limits not only on the total amount of space, but also on the total number of files that a group is allowed to create. Talk to your system administrator. There is likely a special command that you can run to find the relevant information (e.g., quota, diskUsage, prquota, etc... these are usually scripts written by your administrators so the name could in theory be anything).

Chris.
________________________________________
From: gromacs.org_gmx-users-bounces at maillist.sys.kth.se <gromacs.org_gmx-users-bounces at maillist.sys.kth.se> on behalf of Pavan Kumar <kumar.pavan006 at gmail.com>
Sent: 04 March 2014 09:38
To: gmx-users
Subject: Re: [gmx-users] Out of Disk Space

Hello THOMMAS,

Exactly, it showed 2.2GB of trajectory is going to be created.
But i have 17GB of free space on my cluster on which i am running.
So any other reasons for the error.
Thanks in advance.


On Tue, Mar 4, 2014 at 8:00 PM, MUSYOKA THOMMAS <
mutemibiochemistry at gmail.com> wrote:

> Hi Pavan,
> When you use the grompp command to prepare the md.tpr file for the final
> mdrun, do you notice such a statement "This run will generate roughly XXXXX
> Mb of data". I suspect the resultant trajectory could be exceeding the
> available space.
>
>
> On Tue, Mar 4, 2014 at 4:12 PM, Pavan Kumar <kumar.pavan006 at gmail.com
> >wrote:
>
> > Hi everybody,
> > I am running mdrun_mpi V 4.6.5 for nsteps=10000000; 20 ns
> > My simulation is getting stopped at 500ps and I am getting following
> error
> > even though i have enough space on my cluster around 17 GB.
> >
> > *Cannot fsync 'md1.trr'; maybe you are out of disk space?*
> > *Cannot fsync 'md1.log'; maybe you are out of disk space?*
> >
> >
> >  I have executed for two times, each time i get different error.
> >
> > What is the reason for the above error. I am sharing my mdp file.
> > Any help is appreciated.
> > --
> > Thanks & Regards,
> > Pavan Kumar
> > Project Engineer
> > CDAC -KP
> > Ph +91-7676367646
> >
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Pavan Kumar
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