[R] installing Rmpi on centos 6 with mpich

[Marc Schwartz]

On Nov 21, 2012, at 10:40 AM, Ricardo Román Brenes <rroman at cenat.ac.cr> wrote:

> Hello everyone
> 
> im trying to install Rmpi library on centos 6. I have already installed
> mpich2 1.4
> 
> [root at localhost ~]# R --version
>> R version 2.15.1 (2012-06-22) -- "Roasted Marshmallows"
>> Copyright (C) 2012 The R Foundation for Statistical Computing
>> ISBN 3-900051-07-0
>> Platform: x86_64-redhat-linux-gnu (64-bit)
> 
> 
> 
> [root at localhost ~]# mpich2version
>> MPICH2 Version:     1.4.1p1
>> MPICH2 Release date: Thu Sep  1 13:53:02 CDT 2011
>> MPICH2 Device:     ch3:nemesis
>> MPICH2 configure:
>> MPICH2 CC: gcc    -O2
>> MPICH2 CXX: c++   -O2
>> MPICH2 F77: gfortran   -O2
>> MPICH2 FC: f95   -O2
> 
> 
> 
> 
> when i issue the install order i get this output:
> 
> 
>> install.packages("Rmpi")
>> Installing package(s) into ‘/usr/lib64/R/library’
>> (as ‘lib’ is unspecified)
>> trying URL 'http://cran.rstudio.com/src/contrib/Rmpi_0.6-1.tar.gz'
>> Content type 'application/x-gzip' length 92977 bytes (90 Kb)
>> opened URL
>> ==================================================
>> downloaded 90 Kb
>> * installing *source* package ‘Rmpi’ ...
>> ** package ‘Rmpi’ successfully unpacked and MD5 sums checked
>> checking for gcc... gcc -m64 -std=gnu99
>> checking whether the C compiler works... yes
>> checking for C compiler default output file name... a.out
>> checking for suffix of executables...
>> checking whether we are cross compiling... no
>> checking for suffix of object files... o
>> checking whether we are using the GNU C compiler... yes
>> checking whether gcc -m64 -std=gnu99 accepts -g... yes
>> checking for gcc -m64 -std=gnu99 option to accept ISO C89... none needed
>> I am here /usr/local and it is OpenMPI
>> Trying to find mpi.h ...
>> Found in /usr/local/include
>> Trying to find libmpi.so or libmpich.a ...
>> checking for main in -lmpi... no
>> libmpi not found. exiting...
>> ERROR: configuration failed for package ‘Rmpi’
>> * removing ‘/usr/lib64/R/library/Rmpi’
>> The downloaded source packages are in
>> ‘/tmp/RtmpBvTTqc/downloaded_packages’
>> Updating HTML index of packages in '.Library'
>> Making packages.html  ... done
>> Warning message:
>> In install.packages("Rmpi") :
>>  installation of package ‘Rmpi’ had non-zero exit status
> 
> 
> 
> I have tried with different configure.args but the result is the same, i
> cant seem to install it...
> 
> Is there someone who has been through the same problem? or that knows a
> guide i can follow or something?
> 
> Thanks in advance
> 
> Ricardo


There is a page here:

  http://www.stats.uwo.ca/faculty/yu/Rmpi/

which is linked from the CRAN page for the package. On the above page, there is an Installation for Linux link, which is likely to be helpful.

Regards,

Marc Schwartz