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trouble installing Rmpi

7 messages · John Joseph, Dirk Eddelbuettel, Kevin.Buckley at ecs.vuw.ac.nz

Original
Dirk Eddelbuettel
#
On 18 November 2010 at 14:48, John Joseph wrote:
| I am new to Linux and parallel processing, and am having trouble installing Rmpi.
[...]
| I am using Ubuntu 10.04.
| 
| I would greatly appreciate any help you can give.

Try

	sudo apt-get install r-cran-rmpi

which should also install Open MPI. LAM is deprecated in favour of Open MPI.

Dirk
Dirk Eddelbuettel
#
On 19 November 2010 at 07:07, John Joseph wrote:
| 
| Thanks, Dirk.
| 
| I appreciate this advice.  I didn't even know R packages could be loaded that
| way,
| so that's a good lesson for me.  I'm such a newbie.  Anyway, when I tried it,

Maybe you should do a little more reading rather than random compiling.
We are here (and on r-sig-debian) to help.  There are list archives. There
are HOWTO. There are even (excellent) manuals for R (though they do not cover
dpkg and apt-get).

| Rmpi seemed to get installed propoerly (no warnings or error messages).  But,
| then
| when I went into R, and typed library(Rmpi), this is what I get:
| 
| > library(Rmpi)
| Error in dyn.load(file, DLLpath = DLLpath, ...) :
|   unable to load shared library '/home/john/R/i486-pc-linux-gnu-library/2.11/
| Rmpi/libs/Rmpi.so':
|   liblam.so.4: cannot open shared object file: No such file or directory
| Error in library(Rmpi) : .First.lib failed for 'Rmpi'

Your local Rmpi shadows and hides the one I suggested.

In short, *I* would uninstall all the local packages and do (as per my last
email)

	sudo apt-get install r-cran-rmpi

| > q()
| Save workspace image? [y/n/c]: n
| Warning message:
| .Last.lib failed in detach() for 'Rmpi', details:
|   call: dyn.unload(file.path(libpath, "libs", paste("Rmpi",
| .Platform$dynlib.ext,
|   error: dynamic/shared library '/home/john/R/i486-pc-linux-gnu-library/2.11/
| Rmpi/libs/Rmpi.so' was not loaded
| john at john-desktop:~$
| 
| 
| Prior to that I had tried several other times without success.  I learned that
| I probably shouldn't have
| installed openMPI 1.4.3 over the earlier version, 1.4.2, that came with my
| Ubuntu 10.04.  So, after some

For Pete's sake, why do you think you need to *build* Open MPI?  

I suggested to install a pre-built, tested, working binary.

| research, I think I correctly uninstalled it with "make uninstall" command at
| the build tree.  Didn't seem to
| help.  I tried a few other things with no luck.  Do you think there's some
| simple solution?  Thanks for your help.

There is a simple solution.  Use the *package* via the *package management
system* of your *Linux distribution*.  

You don't have to use those. If and when you know better you can always
replace those, but currently I believe you are better served with the
prebuilt ones. 

Hope this helps,  Dirk


| 
| John Joseph
| 
| -----Original Message-----
| From: Dirk Eddelbuettel [mailto:edd at debian.org]
| Sent: Thu 11/18/2010 3:09 PM
| To: John Joseph
| Cc: r-sig-hpc at r-project.org
| Subject: Re: [R-sig-hpc] trouble installing Rmpi
| 
|
| On 18 November 2010 at 14:48, John Joseph wrote:
| | I am new to Linux and parallel processing, and am having trouble installing
| Rmpi.
| [...]
| | I am using Ubuntu 10.04.
| |
| | I would greatly appreciate any help you can give.
| 
| Try
| 
|         sudo apt-get install r-cran-rmpi
| 
| which should also install Open MPI. LAM is deprecated in favour of Open MPI.
| 
| Dirk
| 
| --
| Dirk Eddelbuettel | edd at debian.org | http://dirk.eddelbuettel.com
| 
| 
|
3 days later
Kevin.Buckley at ecs.vuw.ac.nz
# 
Hey John,

a brief note explaining what you had to do to get that
windows/MPICH2/R/Rmpi stack going would be worth posting
here for those who come afterwards.

Even if your experience is: installed R, installed ,MPICH2
and Rmpi just reconciled the bits it needed, it is as least
a confirmation of that process from someone who has actually
got it going.