On Tue, Dec 11, 2012 at 6:49 PM, Mirco Wahab <
mirco.wa...@chemie.tu-freiberg.de> wrote:
> Am 11.12.2012 16:04, schrieb Szilárd Páll:
>
> It looks like some gcc 4.7-s don't work with CUDA, although I've been
>> using
>> various Ubuntu/Linaro versions, most recently 4.7.2 and had no
>> issues what
Am 11.12.2012 16:04, schrieb Szilárd Páll:
It looks like some gcc 4.7-s don't work with CUDA, although I've been using
various Ubuntu/Linaro versions, most recently 4.7.2 and had no
issues whatsoever. Some people seem to have bumped into the same problem
(see http://goo.gl/1onBz or http://goo.gl/
Hi Thomas,
It looks like some gcc 4.7-s don't work with CUDA, although I've been using
various Ubuntu/Linaro versions, most recently 4.7.2 and had no
issues whatsoever. Some people seem to have bumped into the same problem
(see http://goo.gl/1onBz or http://goo.gl/JEnuk) and the suggested fix is
t
> > gcc 4.7.2 is not supported by any CUDA version.
> >
>
> I suggest that you just fix it by editing the include/host_config.h and
> changing the version check macro (line 82 AFAIK). I've never had real
> problems with using new and officially not supported gcc-s, the version
> check is more of a
On Sun, Nov 25, 2012 at 8:47 PM, Thomas Evangelidis wrote:
> Hi Szilárd,
>
> I was able to run code compiled with icc 13 on Fedora 17, but as I don't
> > have Intel Compiler v13 on this machine I can't check it now.
> >
> > Please check if it works for you with gcc 4.7.2 (which is the default)
> a
Hi Szilárd,
I was able to run code compiled with icc 13 on Fedora 17, but as I don't
> have Intel Compiler v13 on this machine I can't check it now.
>
> Please check if it works for you with gcc 4.7.2 (which is the default) and
> let me know if you succeed. The performance difference between icc a
On Mon, Nov 19, 2012 at 6:25 PM, Szilárd Páll wrote:
> On Mon, Nov 19, 2012 at 4:09 PM, Thomas Evangelidis wrote:
>
>> Hi Szilárd,
>>
>> I compiled with the Intel compilers, not gcc. In case I am missing
>> something, these are the versions I have:
>>
>
> Indeed, I see it now in the log file. Let
On Mon, Nov 19, 2012 at 4:09 PM, Thomas Evangelidis wrote:
> Hi Szilárd,
>
> I compiled with the Intel compilers, not gcc. In case I am missing
> something, these are the versions I have:
>
Indeed, I see it now in the log file. Let me try with icc 13 and will get
back to you.
>
> glibc.i686
Hi Szilárd,
I compiled with the Intel compilers, not gcc. In case I am missing
something, these are the versions I have:
glibc.i6862.15-57.fc17
@updates
glibc.x86_64 2.15-57.fc17
@updates
glibc-common.x86_64 2.15-57.fc17
@upda
Thomas & Albert,
We are unable to reproduce the issue on FC 17 with glibc 2.15-58 and gcc
4.7.2.
Please try to update your packages (you should have updates available for
glibc), try recompiling with the latest 4.6 code and report back whether
you succeed.
Cheers,
--
Szilárd
On Fri, Nov 16, 2
Hi Albert,
Apologies for hijacking your thread. Do you happen to have Fedora 17 as
well?
--
Szilárd
On Sun, Nov 4, 2012 at 10:55 AM, Albert wrote:
> hello:
>
> I am running Gromacs 4.6 GPU on a workstation with two GTX 660 Ti (2 x
> 1344 CUDA cores), and I got the following warnings:
>
> tha
Hi Thomas,
The output you get means that you don't have any of the macros we try to
use although your man pages seem to be referring to them. Hence, I'm really
clueless why is this happening. Could you please file a bug report on
redmine.gromacs.org and add both the initial output as well as my pa
On 11/15/12 9:53 AM, Thomas Evangelidis wrote:
Hi Szilárd,
This is the warning message I get this time:
WARNING: Oversubscribing the available -66 logical CPU cores with 1
thread-MPI threads.
This will cause considerable performance loss!
I have also attached the md.log file.
At
Hi Thomas,
Could you please try applying the attached patch (git apply
hardware_detect.patch in the 4.6 source root) and let me know what the
output is?
This should show which sysconf macro is used and what its return value is
as well as indicate if none of the macros are in fact defined by your
On 10 November 2012 03:21, Szilárd Páll wrote:
> Hi,
>
> You must have an odd sysconf version! Could you please check what is the
> sysconf system variable's name in the sysconf man page (man sysconf) where
> it says something like:
>
> _SC_NPROCESSORS_ONLN
> The number of proces
Hi,
You must have an odd sysconf version! Could you please check what is the
sysconf system variable's name in the sysconf man page (man sysconf) where
it says something like:
_SC_NPROCESSORS_ONLN
The number of processors currently online.
The first line should be one of the
fol
Hi,
On Tue, Nov 6, 2012 at 12:03 AM, Thomas Evangelidis wrote:
> Hi,
>
> I get these two warnings when I run the dhfr/GPU/dhfr-solv-PME.bench
> benchmark with the following command line:
>
> mdrun_intel_cuda5 -v -s topol.tpr -testverlet
>
> "WARNING: Oversubscribing the available 0 logical CPU co
Hi,
I get these two warnings when I run the dhfr/GPU/dhfr-solv-PME.bench
benchmark with the following command line:
mdrun_intel_cuda5 -v -s topol.tpr -testverlet
"WARNING: Oversubscribing the available 0 logical CPU cores with 1
thread-MPI threads."
0 logical CPU cores? Isn't this bizarre? My C
The first warning indicates that you are starting more threads than the
hardware supports which would explain the poor performance.
Could share a log file of the suspiciously slow run as well as the command
line you used to start mdrun?
Cheers,
--
Szilárd
On Sun, Nov 4, 2012 at 5:32 PM, Albert
well, IC.
the performance is rather poor than GTX590. 32ns/day vs 4 ns/day
probably that's also something related to the warnings?
THX
On 11/04/2012 01:59 PM, Justin Lemkul wrote:
On 11/4/12 4:55 AM, Albert wrote:
hello:
I am running Gromacs 4.6 GPU on a workstation with two GTX 660
I 'm also get the first warning ("oversubscribing the available...") and
see no obvious performance gain. Do you know how to avoid that?
thanks,
Thomas
On 4 November 2012 14:59, Justin Lemkul wrote:
>
>
> On 11/4/12 4:55 AM, Albert wrote:
>
>> hello:
>>
>> I am running Gromacs 4.6 GPU on a
On 11/4/12 4:55 AM, Albert wrote:
hello:
I am running Gromacs 4.6 GPU on a workstation with two GTX 660 Ti (2 x 1344
CUDA cores), and I got the following warnings:
thank you very much.
---messages---
WARNING: On node 0: oversubscribi
hello:
I am running Gromacs 4.6 GPU on a workstation with two GTX 660 Ti (2 x
1344 CUDA cores), and I got the following warnings:
thank you very much.
---messages---
WARNING: On node 0: oversubscribing the available 0 logical CPU cores
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