Szilárd,<div><br></div><div>I did a memory test run yesterday and it went fine but today received an error. So you mean to say the tesla card version nothing to do with this right.</div><div><br></div><div>Thanks<br><br><div class="gmail_quote">
On Thu, Jan 19, 2012 at 11:09 PM, Szilárd Páll <span dir="ltr"><<a href="mailto:szilard.pall@cbr.su.se">szilard.pall@cbr.su.se</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">
That's a generic GPU kernel launch failure which can mean anything,<br>
from faulty hardware to bad driver to messed up installation.<br>
<br>
Does the memory test run? Try to compile/install again and see if it works.<br>
<span class="HOEnZb"><font color="#888888"><br>
--<br>
Szilárd<br>
<br>
<br>
<br>
On Thu, Jan 19, 2012 at 4:18 PM, aiswarya pawar<br>
</font></span><div class="HOEnZb"><div class="h5"><<a href="mailto:aiswarya.pawar@gmail.com">aiswarya.pawar@gmail.com</a>> wrote:<br>
> when i tired running it again, i got an error as<br>
><br>
> Cuda error in file<br>
> '/home/staff/sec/secdpal/software/openmm_tesla/platforms/cuda/./src/kernels//<a href="http://bbsort.cu" target="_blank">bbsort.cu</a>'<br>
> in line 176 : unspecified launch failure.<br>
><br>
> /bin/cat: file_loc: No such file or directory<br>
><br>
><br>
> On Thu, Jan 19, 2012 at 8:45 PM, aiswarya pawar <<a href="mailto:aiswarya.pawar@gmail.com">aiswarya.pawar@gmail.com</a>><br>
> wrote:<br>
>><br>
>> Has the tesla card got to do anything with the error. Am using Nvidia<br>
>> Tesla S1070 1U server.<br>
>><br>
>><br>
>> On Thu, Jan 19, 2012 at 8:37 PM, Szilárd Páll <<a href="mailto:szilard.pall@cbr.su.se">szilard.pall@cbr.su.se</a>><br>
>> wrote:<br>
>>><br>
>>> And sorting out where the /bin/cat error comes from because that is<br>
>>> surely not a Gromacs message!<br>
>>><br>
>>> Cheers,<br>
>>> --<br>
>>> Szilárd<br>
>>><br>
>>><br>
>>><br>
>>> On Thu, Jan 19, 2012 at 1:12 PM, Mark Abraham <<a href="mailto:Mark.Abraham@anu.edu.au">Mark.Abraham@anu.edu.au</a>><br>
>>> wrote:<br>
>>> > On 19/01/2012 8:45 PM, aiswarya pawar wrote:<br>
>>> ><br>
>>> > Mark,<br>
>>> ><br>
>>> > THe normal mdrun also hangs thus not generating any output.<br>
>>> ><br>
>>> ><br>
>>> > OK. It's your problem to solve... keep simplifying stuff until you can<br>
>>> > isolate a small number of possible causes. Top of the list is file<br>
>>> > system<br>
>>> > availability.<br>
>>> ><br>
>>> > Mark<br>
>>> ><br>
>>> ><br>
>>> ><br>
>>> > On Thu, Jan 19, 2012 at 3:09 AM, Mark Abraham <<a href="mailto:Mark.Abraham@anu.edu.au">Mark.Abraham@anu.edu.au</a>><br>
>>> > wrote:<br>
>>> >><br>
>>> >> On 19/01/2012 2:59 AM, <a href="mailto:aiswarya.pawar@gmail.com">aiswarya.pawar@gmail.com</a> wrote:<br>
>>> >><br>
>>> >> Hi,<br>
>>> >><br>
>>> >> Its going into the running mode but gets hang there for long hours<br>
>>> >> which<br>
>>> >> generating any data in the output file. And am not able to figure out<br>
>>> >> the<br>
>>> >> error file_doc. Please anyone knows what's going wrong.<br>
>>> >><br>
>>> >><br>
>>> >> No, but you should start trying to simplify what you're doing to see<br>
>>> >> where<br>
>>> >> the problem lies. Does normal mdrun work?<br>
>>> >><br>
>>> >> Mark<br>
>>> >><br>
>>> >><br>
>>> >> Thanks<br>
>>> >> Sent from my BlackBerry® on Reliance Mobile, India's No. 1 Network. Go<br>
>>> >> for<br>
>>> >> it!<br>
>>> >><br>
>>> >> -----Original Message-----<br>
>>> >> From: Szilárd Páll <<a href="mailto:szilard.pall@cbr.su.se">szilard.pall@cbr.su.se</a>><br>
>>> >> Sender: <a href="mailto:gmx-users-bounces@gromacs.org">gmx-users-bounces@gromacs.org</a><br>
>>> >> Date: Wed, 18 Jan 2012 14:47:59<br>
>>> >> To: Discussion list for GROMACS users<<a href="mailto:gmx-users@gromacs.org">gmx-users@gromacs.org</a>><br>
>>> >> Reply-To: Discussion list for GROMACS users <<a href="mailto:gmx-users@gromacs.org">gmx-users@gromacs.org</a>><br>
>>> >> Subject: Re: [gmx-users] mdrun-gpu error<br>
>>> >><br>
>>> >> Hi,<br>
>>> >><br>
>>> >> Most of those are just warnings, the only error I see there comes from<br>
>>> >> the shell, probably an error in your script.<br>
>>> >><br>
>>> >> Cheers,<br>
>>> >> --<br>
>>> >> Szilárd<br>
>>> >><br>
>>> >><br>
>>> >><br>
>>> >> On Wed, Jan 18, 2012 at 12:27 PM, aiswarya pawar<br>
>>> >> <<a href="mailto:aiswarya.pawar@gmail.com">aiswarya.pawar@gmail.com</a>> wrote:<br>
>>> >><br>
>>> >> Hi users,<br>
>>> >><br>
>>> >> Am running mdrun on gpu . I receive an error such as=<br>
>>> >><br>
>>> >> WARNING: This run will generate roughly 38570 Mb of data<br>
>>> >><br>
>>> >><br>
>>> >> WARNING: OpenMM does not support leap-frog, will use velocity-verlet<br>
>>> >> integrator.<br>
>>> >><br>
>>> >><br>
>>> >> WARNING: OpenMM supports only Andersen thermostat with the<br>
>>> >> md/md-vv/md-vv-avek integrators.<br>
>>> >><br>
>>> >><br>
>>> >> WARNING: OpenMM supports only Monte Carlo barostat for pressure<br>
>>> >> coupling.<br>
>>> >><br>
>>> >><br>
>>> >> WARNING: OpenMM provides contraints as a combination of SHAKE, SETTLE<br>
>>> >> and<br>
>>> >> CCMA. Accuracy is based on the SHAKE tolerance set by the "shake_tol"<br>
>>> >> option.<br>
>>> >><br>
>>> >> /bin/cat: file_loc: No such file or directory<br>
>>> >><br>
>>> >><br>
>>> >> and the job is running but the nothing written into .xtc, .trr, .edr<br>
>>> >> files<br>
>>> >> .<br>
>>> >> What could have gone wrong?<br>
>>> >><br>
>>> >> --<br>
>>> >> Aiswarya B Pawar<br>
>>> >><br>
>>> >> Bioinformatics Dept,<br>
>>> >> Indian Institute of Science<br>
>>> >> Bangalore<br>
>>> >><br>
>>> >><br>
>>> >><br>
>>> >> --<br>
>>> >> gmx-users mailing list <a href="mailto:gmx-users@gromacs.org">gmx-users@gromacs.org</a><br>
>>> >> <a href="http://lists.gromacs.org/mailman/listinfo/gmx-users" target="_blank">http://lists.gromacs.org/mailman/listinfo/gmx-users</a><br>
>>> >> Please search the archive at<br>
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>>> >> Please don't post (un)subscribe requests to the list. Use the<br>
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>>> >><br>
>>> >> --<br>
>>> >> gmx-users mailing list <a href="mailto:gmx-users@gromacs.org">gmx-users@gromacs.org</a><br>
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>>> >><br>
>>> >><br>
>>> >><br>
>>> >><br>
>>> >><br>
>>> >> --<br>
>>> >> gmx-users mailing list <a href="mailto:gmx-users@gromacs.org">gmx-users@gromacs.org</a><br>
>>> >> <a href="http://lists.gromacs.org/mailman/listinfo/gmx-users" target="_blank">http://lists.gromacs.org/mailman/listinfo/gmx-users</a><br>
>>> >> Please search the archive at<br>
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>>> ><br>
>>> ><br>
>>> ><br>
>>> ><br>
>>> > --<br>
>>> > Aiswarya B Pawar<br>
>>> ><br>
>>> > Bioinformatics Dept,<br>
>>> > Indian Institute of Science<br>
>>> > Bangalore<br>
>>> ><br>
>>> ><br>
>>> ><br>
>>> ><br>
>>> ><br>
>>> ><br>
>>> > --<br>
>>> > gmx-users mailing list <a href="mailto:gmx-users@gromacs.org">gmx-users@gromacs.org</a><br>
>>> > <a href="http://lists.gromacs.org/mailman/listinfo/gmx-users" target="_blank">http://lists.gromacs.org/mailman/listinfo/gmx-users</a><br>
>>> > Please search the archive at<br>
>>> > <a href="http://www.gromacs.org/Support/Mailing_Lists/Search" target="_blank">http://www.gromacs.org/Support/Mailing_Lists/Search</a> before posting!<br>
>>> > Please don't post (un)subscribe requests to the list. Use the<br>
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>>> --<br>
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>><br>
>><br>
>><br>
>><br>
>> --<br>
>> Aiswarya B Pawar<br>
>><br>
>> Bioinformatics Dept,<br>
>> Indian Institute of Science<br>
>> Bangalore<br>
>><br>
>><br>
><br>
><br>
><br>
> --<br>
> Aiswarya B Pawar<br>
><br>
> Bioinformatics Dept,<br>
> Indian Institute of Science<br>
> Bangalore<br>
><br>
><br>
><br>
> --<br>
> gmx-users mailing list <a href="mailto:gmx-users@gromacs.org">gmx-users@gromacs.org</a><br>
> <a href="http://lists.gromacs.org/mailman/listinfo/gmx-users" target="_blank">http://lists.gromacs.org/mailman/listinfo/gmx-users</a><br>
> Please search the archive at<br>
> <a href="http://www.gromacs.org/Support/Mailing_Lists/Search" target="_blank">http://www.gromacs.org/Support/Mailing_Lists/Search</a> before posting!<br>
> Please don't post (un)subscribe requests to the list. Use the<br>
> www interface or send it to <a href="mailto:gmx-users-request@gromacs.org">gmx-users-request@gromacs.org</a>.<br>
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--<br>
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Please search the archive at <a href="http://www.gromacs.org/Support/Mailing_Lists/Search" target="_blank">http://www.gromacs.org/Support/Mailing_Lists/Search</a> before posting!<br>
Please don't post (un)subscribe requests to the list. Use the<br>
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</div></div></blockquote></div><br><br clear="all"><div><br></div>-- <br>Aiswarya B Pawar<br><br>Bioinformatics Dept, <br>Indian Institute of Science<br>Bangalore<br><br><br>
</div>