Re: [AMBER] Amber 14 Performance and Other Questions

From: Novosielski, Ryan <novosirj.ca.rutgers.edu>
Date: Mon, 12 Jan 2015 14:43:07 -0500


> On Jan 12, 2015, at 2:26 PM, Jason Swails <jason.swails.gmail.com> wrote:
>
> On Mon, Jan 12, 2015 at 2:11 PM, Novosielski, Ryan <novosirj.ca.rutgers.edu>
> wrote:
>
>> I am curious what the reason is for the second process that runs on the
>> GPU on Amber 14 (eg. if you run a 2 GPU MPI job, you will get 2 GPU
>> processes per GPU, for a total of 4).
>>
> ​​
> ​​​Where are you seeing this?​ This hasn't been my experience...

Shows up in nvidia-smi. On the K20, two are always 64MiB and then there are two that appear to have the meat of the thing. On our M2090 machine, I’m seeing a 53MiB process and then the other larger one. I just happened to notice: same PID. Interesting.

Amber12, FWIW, does not do this.

-bash-3.2# nvidia-smi
Mon Jan 12 14:41:04 2015
+------------------------------------------------------+
| NVIDIA-SMI 340.29 Driver Version: 340.29 |
|-------------------------------+----------------------+----------------------+
| GPU Name Persistence-M| Bus-Id Disp.A | Volatile Uncorr. ECC |
| Fan Temp Perf Pwr:Usage/Cap| Memory-Usage | GPU-Util Compute M. |
|===============================+======================+======================|
| 0 Tesla K20m Off | 0000:02:00.0 Off | Off |
| N/A 30C P8 25W / 225W | 12MiB / 5119MiB | 0% Default |
+-------------------------------+----------------------+----------------------+
| 1 Tesla K20m Off | 0000:03:00.0 Off | Off |
| N/A 35C P8 26W / 225W | 12MiB / 5119MiB | 0% Default |
+-------------------------------+----------------------+----------------------+
| 2 Tesla K20m Off | 0000:83:00.0 Off | Off |
| N/A 51C P0 132W / 225W | 724MiB / 5119MiB | 96% Default |
+-------------------------------+----------------------+----------------------+
| 3 Tesla K20m Off | 0000:84:00.0 Off | Off |
| N/A 44C P0 126W / 225W | 918MiB / 5119MiB | 93% Default |
+-------------------------------+----------------------+----------------------+
                                                                               
+-----------------------------------------------------------------------------+
| Compute processes: GPU Memory |
| GPU PID Process name Usage |
|=============================================================================|
| 2 9059 /opt/sw/packages/Amber/amber14/bin/pmemd.cuda.MPI 64MiB |
| 2 9058 /opt/sw/packages/Amber/amber14/bin/pmemd.cuda.MPI 642MiB |
| 3 9059 /opt/sw/packages/Amber/amber14/bin/pmemd.cuda.MPI 836MiB |
| 3 9058 /opt/sw/packages/Amber/amber14/bin/pmemd.cuda.MPI 64MiB |
+——————————————————————————————————————+

--
____ *Note: UMDNJ is now Rutgers-Biomedical and Health Sciences*
|| \\UTGERS |---------------------*O*---------------------
||_// Biomedical | Ryan Novosielski - Senior Technologist
|| \\ and Health | novosirj.rutgers.edu - 973/972.0922 (2x0922)
|| \\ Sciences | OIRT/High Perf & Res Comp - MSB C630, Newark
     `'

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Received on Mon Jan 12 2015 - 12:00:02 PST
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