Re: [OMPI users] SGE tight integration and ?tm? protocol for start

2008-10-13 Thread Reuti
Am 13.10.2008 um 00:55 schrieb Sean Davis: On Sat, Oct 11, 2008 at 6:48 PM, Reuti wrote: Am 12.10.2008 um 00:21 schrieb Sean Davis: Thanks, Pak. There is only one queue on the SGE system. Of course, there are queue instances for each machine, which is the usual for SGE. I'll give the -

[OMPI users] Rmpi installation issues

2008-10-13 Thread Simone Giannerini
Dear all, I have troubles installing rmpi 0.5-5 (or 0.5-6) on a quad opteron machine with OpenSUSE 11.0 and R 2.7.2 platform x86_64-unknown-linux-gnu arch x86_64 os linux-gnu system x86_64, linux-gnu status Patched major 2 minor 7.2 y

Re: [OMPI users] Rmpi installation issues

2008-10-13 Thread Jeff Squyres
We always recommend using the Open MPI "wrapper" compilers instead of directly using gcc. There are very few scenarios where it is better to use the native compilers directly. You might want to check with the RMPI authors for more details; I'm afraid that I don't know anything about that p

Re: [OMPI users] OpenMPI portability problems: debug info isn't helpful

2008-10-13 Thread Jeff Squyres
On Oct 11, 2008, at 10:20 AM, Aleksej Saushev wrote: $ ompi_info | grep oob MCA oob: tcp (MCA v1.0, API v1.0, Component v1.0) MCA rml: oob (MCA v1.0, API v1.0, Component v1.2.7) Good! Is there a chance that there's some dependent library of oob_rml that is av

Re: [OMPI users] Rmpi installation issues

2008-10-13 Thread Sean Davis
On Mon, Oct 13, 2008 at 8:14 AM, Jeff Squyres wrote: > We always recommend using the Open MPI "wrapper" compilers instead of > directly using gcc. There are very few scenarios where it is better to use > the native compilers directly. > > You might want to check with the RMPI authors for more det

Re: [OMPI users] Rmpi installation issues

2008-10-13 Thread Dirk Eddelbuettel
On 13 October 2008 at 11:22, Simone Giannerini wrote: | Dear all, | | I have troubles installing rmpi 0.5-5 (or 0.5-6) on a quad opteron machine | with OpenSUSE 11.0 and | R 2.7.2 | | platform x86_64-unknown-linux-gnu | arch x86_64 | os linux-gnu | system x86

Re: [OMPI users] Rmpi installation issues

2008-10-13 Thread Simone Giannerini
Dear Dirk, many thanks for your reply, please see below, On 13 October 2008 at 11:22, Simone Giannerini wrote: | Dear all, | | I have troubles installing rmpi 0.5-5 (or 0.5-6) on a quad opteron machine | with OpenSUSE 11.0 and | R 2.7.2 | | platform x86_64-unknown-linux-gnu | arch x86_64 | os l

Re: [OMPI users] Rmpi installation issues

2008-10-13 Thread Simone Giannerini
For the sake of completeness, Rmpi 0.5-5 does not even find libmpi gauss:~/Desktop # R CMD INSTALL Rmpi_0.5-5.tar.gz --configure-args=--with-mpi=/usr/lib64/mpi/gcc/openmpi/ * Installing to library '/usr/local/lib64/R/library' * Installing *source* package 'Rmpi' ... checking for gcc... gcc checki

Re: [OMPI users] Rmpi installation issues

2008-10-13 Thread Dirk Eddelbuettel
On Mon, Oct 13, 2008 at 03:56:19PM +0200, Simone Giannerini wrote: > Dear Dirk, > > many thanks for your reply, please see below, Your mail is basically unreadable / impossible to attribute what is original and what is cited. Please follow convention and indent. > On 13 October 2008 at 11:22, S

Re: [OMPI users] Rmpi installation issues

2008-10-13 Thread Simone Giannerini
[...] > Your mail is basically unreadable / impossible to attribute what is > original and what is cited. Please follow convention and indent. I am sorry, I am copy/pasting the messages because I switched off receiving list mails. I forgot to ask to reply also to my personal address. Hope this on

Re: [OMPI users] Rmpi installation issues

2008-10-13 Thread Sean Davis
On Mon, Oct 13, 2008 at 12:10 PM, Simone Giannerini wrote: > [...] > >> Your mail is basically unreadable / impossible to attribute what is >> original and what is cited. Please follow convention and indent. > > I am sorry, I am copy/pasting the messages because I switched off receiving > list mai

Re: [OMPI users] Rmpi installation issues

2008-10-13 Thread Jeff Squyres
On Oct 13, 2008, at 12:18 PM, Sean Davis wrote: # ln -s /usr/lib64/mpi/gcc/openmpi/lib64/ /usr/lib64/mpi/gcc/ openmpi/lib # CC="mpicc" R CMD INSTALL Rmpi_0.5-5.tar.gz --configure-args=--with-mpi=/usr/lib64/mpi/gcc/openmpi/ You can drop the --configure-args. Using the correct mpicc should t

Re: [OMPI users] Rmpi installation issues

2008-10-13 Thread Simone Giannerini
>>> # ln -s /usr/lib64/mpi/gcc/openmpi/lib64/ /usr/lib64/mpi/gcc/ >>> openmpi/lib >>> # CC="mpicc" R CMD INSTALL Rmpi_0.5-5.tar.gz >>> --configure-args=--with-mpi=/usr/lib64/mpi/gcc/openmpi/ >> >> You can drop the --configure-args. Using the correct mpicc should >> take care of all the linking, etc

Re: [OMPI users] Rmpi installation issues

2008-10-13 Thread Dirk Eddelbuettel
On Mon, Oct 13, 2008 at 12:18:30PM -0400, Sean Davis wrote: > On Mon, Oct 13, 2008 at 12:10 PM, Simone Giannerini > wrote: > > [...] > > > >> Your mail is basically unreadable / impossible to attribute what is > >> original and what is cited. Please follow convention and indent. > > > > I am sorry