R devel - Sep 2008 - Rmpi on Linux (SuSE) with OpenMPI

Guys,

I'm having troubles with Rmpi on Linux. I got it to work on windows, but on
Linux (SuSE 64 bit), using OpenMPI, I can't seem to get it to work :(

When I do library(Rmpi) I get the warning:

mca: base: component_find: unable to open osc pt2pt: file not found
(ignored)

Interestingly enough all the examples from the snow tutorial (
http://www.sfu.ca/~sblay/R/snow.html) work despite the warning.

But then, when I run my app I get

mca: base: component_find: unable to open osc pt2pt: file not found
(ignored)
mca: base: component_find: unable to open osc pt2pt: file not found
(ignored)
        2 slaves are spawned successfully. 0 failed.
*** Process received signal ***
Signal: Segmentation fault (11)
Signal code: Address not mapped (1)
Failing at address: 0x1c
*** Process received signal ***
Signal: Segmentation fault (11)
Signal code: Address not mapped (1)
Failing at address: 0x1c
[ 0] /lib64/tls/libc.so.6 [0x2a95c87500]
[ 1] [0x2a99b6df4c]
*** End of error message ***
[ 0] /lib64/tls/libc.so.6 [0x2a95c87500]
[ 1] [0x2a99b6e28c]
*** End of error message ***

Google has brought no useful info... The only discussion on the subject is
about an older version of Rmpi (I checked, the fix is in my version). For
reference that discussion is here
http://www.open-mpi.org/community/lists/users/2007/10/4185.php

I'm running on a multiple cpu box rather than a real cluster, that should
make things easier though... Perhaps some permission issue?

Cheers,

// Giuseppe

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(not a question for r-devel; you are simply having (local) troubles with a
package) 

On 5 September 2008 at 10:05, giuseppe1.milicia at hsbcib.com wrote:
| 
| Guys,
| 
| I'm having troubles with Rmpi on Linux. I got it to work on windows, but
on
| Linux (SuSE 64 bit), using OpenMPI, I can't seem to get it to work :(
| 
| When I do library(Rmpi) I get the warning:
| 
| mca: base: component_find: unable to open osc pt2pt: file not found
| (ignored)

It's an Open MPI warning you can suppress in the Open MPI configuration.

| Interestingly enough all the examples from the snow tutorial (
| http://www.sfu.ca/~sblay/R/snow.html) work despite the warning.

Yes because it is just a warning about additional functionality you are not
using.

| But then, when I run my app I get
| 
| mca: base: component_find: unable to open osc pt2pt: file not found
| (ignored)
| mca: base: component_find: unable to open osc pt2pt: file not found
| (ignored)
|         2 slaves are spawned successfully. 0 failed.
| *** Process received signal ***
| Signal: Segmentation fault (11)
| Signal code: Address not mapped (1)
| Failing at address: 0x1c
| *** Process received signal ***
| Signal: Segmentation fault (11)
| Signal code: Address not mapped (1)
| Failing at address: 0x1c
| [ 0] /lib64/tls/libc.so.6 [0x2a95c87500]
| [ 1] [0x2a99b6df4c]
| *** End of error message ***
| [ 0] /lib64/tls/libc.so.6 [0x2a95c87500]
| [ 1] [0x2a99b6e28c]
| *** End of error message ***
| 
| Google has brought no useful info... The only discussion on the subject is
| about an older version of Rmpi (I checked, the fix is in my version). For
| reference that discussion is here
| http://www.open-mpi.org/community/lists/users/2007/10/4185.php
| 
| I'm running on a multiple cpu box rather than a real cluster, that should
| make things easier though... Perhaps some permission issue?

I don't think so. You are getting segfaults. That indicates a code bug or
maybe mismatch between libraries.

But as you didn't provide a reproducible example so we have no way of help
you.

Now, as you say 'multiple cpu box rather than a real cluster' why
don't you
stick to using snow with sockets bypassing all your MPI issues ?

Hth,  Dirk

-- 
Three out of two people have difficulties with fractions.