installing Rmpi on centos 6 with mpich
On Nov 21, 2012, at 10:40 AM, Ricardo Rom?n 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