I am using openmpi 1.7.4 on Ubuntu 12.04 x64 and I have a very odd problem.
I have 4 nodes, all of which are defined in the hostfile and in /etc/hosts.
I can log into each node using ssh and certificate method from the shell
that is running the mpi job, by sing their name as defined in /etc/hosts
I took the advice here and built a personal copy of the current openmpi,
to see if the problems I was having with Rmpi were a result of the old
version on the system.
When I do ldd on the relevant libraries (Rmpi.so is loaded dynamically
by R) everything looks fine; path references that should be
I "fixed it" by finding the message regarding tree spawn in a thread from
November 2013. When I run the job with -mca plm_rsh_no_tree_spawn 1 the job
works over 4 nodes.
I cannot identify any errors in ssh key setup and since I am only using 4
nodes I am not concerned about somewhat slower launch
Hi,
Am 12.03.2014 um 07:37 schrieb Victor:
> I am using openmpi 1.7.4 on Ubuntu 12.04 x64 and I have a very odd problem.
>
> I have 4 nodes, all of which are defined in the hostfile and in /etc/hosts.
>
> I can log into each node using ssh and certificate method from the shell that
> is runnin
Hostname no I use lower case, but for some reason while I was writing
the email I thought that upper case is clearer...
The same version of Ubuntu (12.04 x64) is on all nodes and openmpi and the
executable are shared via nfs.
On 12 March 2014 16:01, Reuti wrote:
> Hi,
>
> Am 12.03.2014 um
Hi Ralph,
I installed openmpi-1.7.5rc2 and applied r31019 to it.
As far as I confirmed, rmaps framework worked fine.
However, by chance, I noticed that single ctrl+c typing could
not terminate a running job. Twice typing was necessary.
Is this your expected behavior?
I didn't use ctrl+c to abo
Are all names resolvable from all servers?
I.e., if you "ssh Node4" from Node1, Node2, and Node3, does it work?
On Mar 12, 2014, at 4:07 AM, Victor wrote:
> Hostname no I use lower case, but for some reason while I was writing the
> email I thought that upper case is clearer...
>
> The s
This all seems to be a side-effect of r30942 -- see:
https://svn.open-mpi.org/trac/ompi/ticket/4365
On Mar 12, 2014, at 5:13 AM, wrote:
>
>
> Hi Ralph,
>
> I installed openmpi-1.7.5rc2 and applied r31019 to it.
> As far as I confirmed, rmaps framework worked fine.
>
> However, by chanc
Thanks, Jeff. I really understood the situation.
Tetsuya
> This all seems to be a side-effect of r30942 -- see:
>
> https://svn.open-mpi.org/trac/ompi/ticket/4365
>
>
> On Mar 12, 2014, at 5:13 AM, wrote:
>
> >
> >
> > Hi Ralph,
> >
> > I installed openmpi-1.7.5rc2 and applied r31019 to it.
>
Generally, all you need to ensure that your personal copy of OMPI is used is to
set the PATH and LD_LIBRARY_PATH to point to your new Open MPI installation. I
do this all the time on my development cluster (where I have something like 6
billion different installations of OMPI available... mmm..
Am 12.03.2014 um 11:39 schrieb Jeff Squyres (jsquyres):
> Generally, all you need to ensure that your personal copy of OMPI is used is
> to set the PATH and LD_LIBRARY_PATH to point to your new Open MPI
> installation. I do this all the time on my development cluster (where I have
> something
Yes they are. Can resolve and log into each node, from each node, using
their "friendly" name, not IP.
On 12 March 2014 18:15, Jeff Squyres (jsquyres) wrote:
> Are all names resolvable from all servers?
>
> I.e., if you "ssh Node4" from Node1, Node2, and Node3, does it work?
>
>
> On Mar 12, 20
Can you verify that for all 4 nodes? I.e., something like this:
foreach node (Node1 Node2 Node3 Node4)
foreach other (Node1 Node2 Node3 Node 4)
echo from $node to $other
ssh $node ssh $other hostname
On Mar 12, 2014, at 7:34 AM, Victor wrote:
> Yes they are. Can resolve and log i
Perhaps there's an RPATH issue here? I don't fully understand the structure of
Rmpi, but is there both an app and a library (or two separate libraries) that
are linking against MPI?
I.e., what we want is:
app -> ~ross/OMPI
\ /
--> library --
But what we'r
My experience with Rmpi and OpenMPI is that it doesn't seem to do well
with the dlopen or dynamic loading. I recently installed R 3.0.3, and
Rmpi, which failed when built against our standard OpenMPI but
succeeded using the following 'secret recipe'. Perhaps there is
something here that will be h
On Wed, 2014-03-12 at 11:50 +0100, Reuti wrote:
> Am 12.03.2014 um 11:39 schrieb Jeff Squyres (jsquyres):
>
> > Generally, all you need to ensure that your personal copy of OMPI is used
> > is to set the PATH and LD_LIBRARY_PATH to point to your new Open MPI
> > installation. I do this all the
I remember having a conversation with someone from R at Supercomputing last
year, and this was one of the issues we discussed. The problem is that you have
to ensure that R is built against the OMPI you are going to use, and it is
usually better to have configured OMPI --disable-dlopen --enable-
On Wed, 2014-03-12 at 14:34 +, Dave Goodell (dgoodell) wrote:
> Perhaps there's an RPATH issue here? I don't fully understand the structure
> of Rmpi, but is there both an app and a library (or two separate libraries)
> that are linking against MPI?
>
> I.e., what we want is:
>
> app -
Hi Ralph, this problem is not fixed completely by today's latest
ticket #4383, I guess ...
https://svn.open-mpi.org/trac/ompi/ticket/4383
For example, in case of returing with ORTE_ERR_SILENT from the line 514
in rmaps_rr_mapper.c file, the problem still occurs. I executed the job
under the unm
Yes, I know - I am just finishing the fix now.
On Mar 12, 2014, at 8:48 PM, tmish...@jcity.maeda.co.jp wrote:
>
>
> Hi Ralph, this problem is not fixed completely by today's latest
> ticket #4383, I guess ...
>
> https://svn.open-mpi.org/trac/ompi/ticket/4383
>
> For example, in case of retur
20 matches
Mail list logo
