Hello,
i am designing a solution to one of my programs, which mixes some tree
generation, matrix operatons, eigenvaluies, among other tasks.
i have to paralellize all of this for a cluster of 4 nodes (32 cores),
and what i first thought was MPI as a blind choice, but after looking
at this picture
mcs.anl.gov/petsc/petsc-as/
>
> My $0.02
> Gus Correa
> -
> Gustavo Correa
> Lamont-Doherty Earth Observatory - Columbia University
> Palisades, NY, 10964-8000 - USA
> ---------
>
> Cristobal Navarro wro
apack uses; hence no OpenMP is there.
>
> Also be clear about the difference:
> "OpenMP" is for shared memory parallel programming, while
> "OpenMPI" is an implantation of MPI standard (this list is about OpenMPI
> obviously).
>
> best
> AA.
>
> On
thanks
very clear,
i was not aware that openMPI internally uses shared memory in case two
proceses reside on the same node,
which is perfect.
very complete explanations,
thanks really
On Thu, Jul 22, 2010 at 7:11 PM, Gus Correa wrote:
> Hi Cristobal
>
> Cristobal Navarro wrote:
were useful for me.
thanks...
Cristobal
On Fri, Jul 23, 2010 at 10:27 PM, Tim Prince wrote:
> On 7/22/2010 4:11 PM, Gus Correa wrote:
>>
>> Hi Cristobal
>>
>> Cristobal Navarro wrote:
>>>
>>> yes,
>>> i was aware of the big difference hehe
Hi,
Even when executing a hello world openmpi, i get this error, which is then
ignored.
fcluster@fuego:~$ mpirun --hostfile myhostfile -np 5 testMPI/hola
[agua:02357] mca: base: component_find: unable to open
/opt/openmpi-1.4.2/lib/openmpi/mca_btl_ofud: perhaps a missing symbol, or
compiled for a
ATH on your .bashrc/.csrhc file
> See this FAQ:
> http://www.open-mpi.org/faq/?category=running#adding-ompi-to-path
>
> I hope it helps,
> Gus Correa
>
> Cristobal Navarro wrote:
>
>> Hi,
>> Even when executing a hello world openmpi, i get this error, which is the
they didnt show in ssh.
On Tue, Jul 27, 2010 at 7:07 PM, Cristobal Navarro wrote:
> Thanks Gus,
>
> but i already had the paths
>
> fcluster@agua:~$ echo $PATH
>
> /opt/openmpi-1.4.2/bin:/opt/cfc/sge/bin/lx24-amd64:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:
On Tue, Jul 27, 2010 at 7:29 PM, Gus Correa wrote:
> Hi Cristobal
>
> Does it run only on the head node alone?
> (Fuego? Agua? Acatenango?)
> Try to put only the head node on the hostfile and execute with mpiexec.
>
--> i will try only with the head node, and post results back
> This may help so
;
>
> On Jul 27, 2010, at 10:35 PM, Cristobal Navarro wrote:
>
> >
> > On Tue, Jul 27, 2010 at 7:29 PM, Gus Correa
> wrote:
> > Hi Cristobal
> >
> > Does it run only on the head node alone?
> > (Fuego? Agua? Acatenango?)
> > Try to put only the h
ly in main node). Someone knows where the log of kernel
error could be?
>
> Cristobal Navarro wrote:
>
>>
>> On Tue, Jul 27, 2010 at 7:29 PM, Gus Correa > g...@ldeo.columbia.edu>> wrote:
>>
>>Hi Cristobal
>>
>>Does it run only on
Process 13 on agua out of 16
Process 12 on agua out of 16
fcluster@agua:~$
On Wed, Jul 28, 2010 at 2:47 PM, Cristobal Navarro wrote:
>
>
> On Wed, Jul 28, 2010 at 11:09 AM, Gus Correa wrote:
>
>> Hi Cristobal
>>
>> In case you are not using full path name for mpiex
On Wed, Jul 28, 2010 at 3:28 PM, Gus Correa wrote:
> Hi Cristobal
>
> Cristobal Navarro wrote:
>
>>
>>
>> On Wed, Jul 28, 2010 at 11:09 AM, Gus Correa > g...@ldeo.columbia.edu>> wrote:
>>
>>Hi Cristobal
>>
>>In case you a
ase, read my answer (way down the message) below.
>
> Cristobal Navarro wrote:
>
>>
>>
>> On Wed, Jul 28, 2010 at 3:28 PM, Gus Correa > g...@ldeo.columbia.edu>> wrote:
>>
>>Hi Cristobal
>>
>>Cristobal Navarro wrote:
>>
>
If your class has too many complex atributes,
it might be a good idea to send some sort of string or similar data
representing your class,
and then on the receiving node, you create the object based on that
information.
works on some type of problems problems.
best regards.
Cristobal
On Wed, Aug
Jul 28 06:21:40 UTC 2010
x86_64 GNU/Linux
that solved everything.
Gus, maybe the problem you had with fedora can be solved in a similar way.
we should keep this for the records.
regards
Cristobal
On Wed, Jul 28, 2010 at 6:45 PM, Gus Correa wrote:
> Cristobal Navarro wrote:
>
>&g
hello Sunita,
what linux distribution is this?
On Fri, Aug 13, 2010 at 1:57 AM, wrote:
> Dear Open-mpi users,
>
> I installed openmpi-1.4.1 in my user area and then set the path for
> openmpi in the .bashrc file as follow. However, am still getting following
> error message whenever am starting
p eMap;
};
they have their corresponding methods and constructors, but those are their
data structures.
you recommend use Boost::MPI:Serialize or do manual Serialize?
best regards
Cristobal
On Fri, May 7, 2010 at 4:49 PM, Fernando Lemos wrote:
> On Fri, May 7, 2010 at 5:33 PM, Cristoba
Hello,
i am new on this mailing list!
i've read the other messages about configuring openMPI on Xgrid, but i
havent solved my problem yet and openMPI keeps running as if Xgrid didnt
exist.
i configured xgrid properly, and can send simple C program jobs trough the
command line from my client, which
tem is using rsh/ssh instead.
>
> Until we get someone interested in xgrid, or at least willing to debug it
> and tell us what needs to be done, I'm afraid our xgrid support will be
> lacking.
>
>
> On Mar 29, 2010, at 12:56 PM, Cristobal Navarro wrote:
>
> Hello,
&
t;
>
> On Mar 29, 2010, at 1:34 PM, Cristobal Navarro wrote:
>
> thanks for the information,
>
> but is it possible to make it work with xgrid or the 1.4.1 version just
> dont support it?
>
>
> FWIW, I've had excellent success with Torque and openmpi on OS-X 10.5
&
at least it would be a good exercise to complete the process with xgrid +
openMPI for the knowledge
Cristobal
On Mon, Mar 29, 2010 at 4:11 PM, Cristobal Navarro wrote:
> i realized that xcode dev tools include openMPI 1.2.x
> should i keep trying??
> or do you recommend to completl
wrote:
>
> On Mar 29, 2010, at 12:39 PM, Ralph Castain wrote:
>
>
> On Mar 29, 2010, at 1:34 PM, Cristobal Navarro wrote:
>
> thanks for the information,
>
> but is it possible to make it work with xgrid or the 1.4.1 version just
> dont support it?
>
>
> FWIW
gt;> Jody Klymak wrote:
>>
>>> On Mar 30, 2010, at 11:12 AM, Cristobal Navarro wrote:
>>>
>>> i just have some questions,
>>>> Torque requires moab, but from what i've read on the site you have to
>>>> buy moab right?
>>>>
Hello,
after some days of work and testing, i managed to install SGE on two
machines, also installed openMPI 1.4.1 for each one.
SGE is working, i can submit jobs and it schedules the jobs to the available
cores total of 6,
my problem is that im trying to run an openMPI job and i cant.
this is
; ioitg2.ioit-grid.ac.vn
> ioitg2.ioit-grid.ac.vn
> ioitg2.ioit-grid.ac.vn
> [huong@ioitg2 MyPhylo]$
>
> This OK.
> What is: the PATH points to where mpirun is located.
>
> TRY.
>
> Good chance
> HT Cuoc
>
>
> On Fri, Apr 9, 2010 at 11:02 AM, Cristobal
your help the important aspects
are working.
Cristobal
On Fri, Apr 9, 2010 at 1:34 PM, Reuti wrote:
> Am 09.04.2010 um 18:57 schrieb Cristobal Navarro:
>
> > sorry the command was missing a number
> >
> > as you said it should be
> >
> > qrsh -verbose -pe
try launching mpirun -v a see what version is picking up.
maybe its the included 1.2.x
Cristobal
On Fri, Apr 30, 2010 at 3:22 PM, Doug Reeder wrote:
> Alan,
>
> Are you sure that the ompi_info and mpirun that you are using are the 1.4.1
> versions and not the apple supplied versions. I use
ponent plm:xgrid compile mode... static
> checking if C and Objective C are link compatible... yes
> checking for XgridFoundation Framework... yes
> configure: WARNING: XGrid components must be built as DSOs. Disabling
> checking if MCA component plm:xgrid can compile... no
>
> Any help
Hello,
my question is the following.
is it possible to send and receive C++ objects or STL structures (for
example, send map myMap) through openMPI SEND and RECEIVE functions?
at first glance i thought it was possible, but after reading some doc, im
not sure.
i dont have my source code at that st
Thanks for the answer,
ill will look at them when i get to this point, i've heard good comments
about boost.
Cristobal
On Fri, May 7, 2010 at 4:49 PM, Fernando Lemos wrote:
> On Fri, May 7, 2010 at 5:33 PM, Cristobal Navarro
> wrote:
> > Hello,
> >
> >
Hello,
i got an algorithm that generates trees, of different sizes, recursively. at
the moment i have the algorithm in its secuential version.
here we have 4 identical computers with Xeon 8-core in each node + 4gb ram.
they have HyperThreading so they count as 16-processors per node.
so i can lau
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