[gmx-users] mdrun-gpu error

[aiswarya pawar]

when i tired running it again, i got an error as

Cuda error in file
'/home/staff/sec/secdpal/software/openmm_tesla/platforms/cuda/./src/kernels//
bbsort.cu' in line 176 : unspecified launch failure.
/bin/cat: file_loc: No such file or directory

On Thu, Jan 19, 2012 at 8:45 PM, aiswarya pawar <aiswarya.pawar at gmail.com>wrote:

> Has the tesla card got to do anything with the error. Am using Nvidia
> Tesla S1070 1U server.
>
>
> On Thu, Jan 19, 2012 at 8:37 PM, Szilárd Páll <szilard.pall at cbr.su.se>wrote:
>
>> And sorting out where the /bin/cat error comes from because that is
>> surely not a Gromacs message!
>>
>> Cheers,
>> --
>> Szilárd
>>
>>
>>
>> On Thu, Jan 19, 2012 at 1:12 PM, Mark Abraham <Mark.Abraham at anu.edu.au>
>> wrote:
>> > On 19/01/2012 8:45 PM, aiswarya pawar wrote:
>> >
>> > Mark,
>> >
>> > THe normal mdrun also hangs thus not generating any output.
>> >
>> >
>> > OK. It's your problem to solve... keep simplifying stuff until you can
>> > isolate a small number of possible causes. Top of the list is file
>> system
>> > availability.
>> >
>> > Mark
>> >
>> >
>> >
>> > On Thu, Jan 19, 2012 at 3:09 AM, Mark Abraham <Mark.Abraham at anu.edu.au>
>> > wrote:
>> >>
>> >> On 19/01/2012 2:59 AM, aiswarya.pawar at gmail.com wrote:
>> >>
>> >> Hi,
>> >>
>> >> Its going into the running mode but gets hang there for long hours
>> which
>> >> generating any data in the output file. And am not able to figure out
>> the
>> >> error file_doc. Please anyone knows what's going wrong.
>> >>
>> >>
>> >> No, but you should start trying to simplify what you're doing to see
>> where
>> >> the problem lies. Does normal mdrun work?
>> >>
>> >> Mark
>> >>
>> >>
>> >> Thanks
>> >> Sent from my BlackBerry® on Reliance Mobile, India's No. 1 Network. Go
>> for
>> >> it!
>> >>
>> >> -----Original Message-----
>> >> From: Szilárd Páll <szilard.pall at cbr.su.se>
>> >> Sender: gmx-users-bounces at gromacs.org
>> >> Date: Wed, 18 Jan 2012 14:47:59
>> >> To: Discussion list for GROMACS users<gmx-users at gromacs.org>
>> >> Reply-To: Discussion list for GROMACS users <gmx-users at gromacs.org>
>> >> Subject: Re: [gmx-users] mdrun-gpu error
>> >>
>> >> Hi,
>> >>
>> >> Most of those are just warnings, the only error I see there comes from
>> >> the shell, probably an error in your script.
>> >>
>> >> Cheers,
>> >> --
>> >> Szilárd
>> >>
>> >>
>> >>
>> >> On Wed, Jan 18, 2012 at 12:27 PM, aiswarya pawar
>> >> <aiswarya.pawar at gmail.com> wrote:
>> >>
>> >> Hi users,
>> >>
>> >> Am running mdrun on gpu . I receive an error such as=
>> >>
>> >> WARNING: This run will generate roughly 38570 Mb of data
>> >>
>> >>
>> >> WARNING: OpenMM does not support leap-frog, will use velocity-verlet
>> >> integrator.
>> >>
>> >>
>> >> WARNING: OpenMM supports only Andersen thermostat with the
>> >> md/md-vv/md-vv-avek integrators.
>> >>
>> >>
>> >> WARNING: OpenMM supports only Monte Carlo barostat for pressure
>> coupling.
>> >>
>> >>
>> >> WARNING: OpenMM provides contraints as a combination of SHAKE, SETTLE
>> and
>> >> CCMA. Accuracy is based on the SHAKE tolerance set by the "shake_tol"
>> >> option.
>> >>
>> >> /bin/cat: file_loc: No such file or directory
>> >>
>> >>
>> >> and the job is running but the nothing written into .xtc, .trr, .edr
>> files
>> >> .
>> >> What could have gone wrong?
>> >>
>> >> --
>> >> Aiswarya  B Pawar
>> >>
>> >> Bioinformatics Dept,
>> >> Indian Institute of Science
>> >> Bangalore
>> >>
>> >>
>> >>
>> >> --
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>> >>
>> >>
>> >>
>> >>
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>> >
>> >
>> >
>> >
>> > --
>> > Aiswarya  B Pawar
>> >
>> > Bioinformatics Dept,
>> > Indian Institute of Science
>> > Bangalore
>> >
>> >
>> >
>> >
>> >
>> >
>> > --
>> > gmx-users mailing list    gmx-users at gromacs.org
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>
>
>
> --
> Aiswarya  B Pawar
>
> Bioinformatics Dept,
> Indian Institute of Science
> Bangalore
>
>
>


-- 
Aiswarya  B Pawar

Bioinformatics Dept,
Indian Institute of Science
Bangalore
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