[R-sig-hpc] R Cluster

[Elias Carvalho]

Hello Guys

I installed a Cluster with OpenMPI with support to TORQUE in a CENTOS 6,
tested it with 1 master and two slaves and cluster works fine.

Installed R and RStudio and executed the code below, an error occurred when
trying to load package, somebody can help, please ?

*# Clean environment*
*closeAllConnections()*
*rm(list=ls())*

*# Adjust environment variables*
*Sys.setenv(PATH="/usr/local/openmpi-1.4.5-tm/bin:/usr/local/openmpi-1.4.5-tm/include:/usr/lib64/qt-3.3/bin:/usr/local/sbin:/usr/local/bin:/sbin:/bin:/usr/sbin:/usr/bin:/root/bin:/usr/local/maui/sbin:/usr/local/maui/bin")*
*Sys.setenv(LD_LIBRARY_PATH="/usr/lib64/R/lib:/lib:/usr/local/lib64:/usr/lib/jvm/jre/lib/amd64/server:/usr/lib/jvm/jre/lib/amd64:/usr/lib/jvm/java/lib/amd64:/usr/java/packages/lib/amd64:/lib:/usr/lib:/usr/local/openmpi-1.4.5-tm/lib/:/usr/local/opemmpi-1.4.5/lib:")*
*Sys.setenv(LD_PRELOAD="/usr/lib64/libutil.so")*

*# Install Package*
*install.packages("Rmpi", configure.args = c*
*                 (*
*
"--with-Rmpi-include=/usr/local/openmpi-1.4.5-tm/include/",*
*                  "--with-Rmpi-libpath=/usr/local/openmpi-1.4.5-tm/lib/", *
*                  "--with-Rmpi-type=OPENMPI",*
*                  "--with-mpi=/usr/local/openmpi-1.4.5-tm/"*
*                 )*
*                )*

*# Load Package*
*library(Rmpi)*

The package installed without problems, but when loading it the error below
occursr:

*** building package indices
** testing if installed package can be loaded
* DONE (Rmpi)

The downloaded source packages are in ‘/tmp/RtmpVk8euT/downloaded_packages’
> # Load Package
> library(Rmpi)
Error : .onLoad failed in loadNamespace() to 'Rmpi', details:
  call: dyn.load(file, DLLpath = DLLpath, ...)
  error: impossíble load object shared
'/home/hpc/R/x86_64-redhat-linux-gnu-library/3.2/Rmpi/libs/Rmpi.so':
  libmpi.so.0: cannot open shared object file: file or directory not found
Erro: package or namespace load failed for ‘Rmpi’*




*-- *
*Best regards... 8^)*

“*A mente que se abre a novas ideias jamais voltará *
*a seu tamanho original*”  *Albert Einstein*


_____________________________________________
Prof. Elias César Araújo de Carvalho
CV: http://lattes.cnpq.br/4248328961021251

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