Dear R yet again!
I finally got the Rmpi package to install! Yay!.
However, when I go into R to use it, there is an error with the dyn.load
file.
This should be simple (allegedly).
Please help.
Thanks,
Sincerely,
Erin
mailto: hodgess at gator.uhd.edu
/home/faculty/hodgess/R-2.6.0/bin
[hodgess at gator bin]$ ./R CMD INSTALL Rmpi_0.5-4.tar.gz
--configure-args=--with-mpi=/home/faculty/hodgess
* Installing to library '/home/faculty/hodgess/R-2.6.0/library'
* Installing *source* package 'Rmpi' ...
checking for gcc... gcc
checking for C compiler default output file name... a.out
checking whether the C compiler works... yes
checking whether we are cross compiling... no
checking for suffix of executables...
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
Try to find mpi.h ...
Found in /home/faculty/hodgess/include
Try to find libmpi or libmpich ...
Found libmpich in /home/faculty/hodgess/lib
Try to find liblam ...
Found liblam in /home/faculty/hodgess/lib
checking for main in -lpthread... yes
configure: creating ./config.status
config.status: creating src/Makevars
** libs
gcc -std=gnu99 -I/home/faculty/hodgess/R-2.6.0/include
-I/home/faculty/hodgess/R-2.6.0/include -DPACKAGE_NAME=\"\"
-DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\"
-DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\"
-I/home/faculty/hodgess/include -DMPI2 -fPIC -I/usr/local/include -fpic -g
-O2 -c conversion.c -o conversion.o
gcc -std=gnu99 -I/home/faculty/hodgess/R-2.6.0/include
-I/home/faculty/hodgess/R-2.6.0/include -DPACKAGE_NAME=\"\"
-DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\"
-DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\"
-I/home/faculty/hodgess/include -DMPI2 -fPIC -I/usr/local/include -fpic -g
-O2 -c internal.c -o internal.o
gcc -std=gnu99 -I/home/faculty/hodgess/R-2.6.0/include
-I/home/faculty/hodgess/R-2.6.0/include -DPACKAGE_NAME=\"\"
-DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\"
-DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\"
-I/home/faculty/hodgess/include -DMPI2 -fPIC -I/usr/local/include -fpic -g
-O2 -c RegQuery.c -o RegQuery.o
gcc -std=gnu99 -I/home/faculty/hodgess/R-2.6.0/include
-I/home/faculty/hodgess/R-2.6.0/include -DPACKAGE_NAME=\"\"
-DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\"
-DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\"
-I/home/faculty/hodgess/include -DMPI2 -fPIC -I/usr/local/include -fpic -g
-O2 -c Rmpi.c -o Rmpi.o
gcc -std=gnu99 -shared -L/usr/local/lib -o Rmpi.so conversion.o internal.o
RegQuery.o Rmpi.o -L/home/faculty/hodgess/lib -lmpich -llam -lpthread -fPIC
** R
** demo
** inst
** preparing package for lazy loading
** help
>>> Building/Updating help pages for package 'Rmpi'
Formats: text html latex example
hosts text html latex
internal text html latex
mpi.abort text html latex
mpi.apply text html latex example
mpi.barrier text html latex
mpi.bcast text html latex
mpi.bcast.Robj text html latex
mpi.bcast.cmd text html latex
mpi.cart.coords text html latex example
mpi.cart.create text html latex example
mpi.cart.get text html latex example
mpi.cart.rank text html latex example
mpi.cart.shift text html latex example
mpi.cartdim.get text html latex example
mpi.comm text html latex example
mpi.comm.disconnect text html latex
mpi.comm.free text html latex
mpi.comm.inter text html latex
mpi.comm.set.errhandler text html latex
mpi.comm.spawn text html latex
mpi.const text html latex
mpi.dims.create text html latex example
mpi.exit text html latex
mpi.finalize text html latex
mpi.gather text html latex example
mpi.gather.Robj text html latex example
mpi.get.count text html latex
mpi.get.processor.name text html latex
mpi.get.sourcetag text html latex
mpi.info text html latex
mpi.init.sprng text html latex
mpi.intercomm.merge text html latex
mpi.parSim text html latex
mpi.parapply text html latex example
mpi.probe text html latex
mpi.realloc text html latex
mpi.reduce text html latex
mpi.remote.exec text html latex example
mpi.scatter text html latex example
mpi.scatter.Robj text html latex example
mpi.send text html latex example
mpi.send.Robj text html latex
mpi.sendrecv text html latex example
mpi.setup.rng text html latex
mpi.spawn.Rslaves text html latex example
mpi.universe.size text html latex
mpi.wait text html latex
** building package indices ...
* DONE (Rmpi)
[hodgess at gator bin]$ ./R
R version 2.6.0 (2007-10-03)
Copyright (C) 2007 The R Foundation for Statistical Computing
ISBN 3-900051-07-0
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
Natural language support but running in an English locale
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
[Previously saved workspace restored]
> library(Rmpi)
Error in dyn.load(file, ...) :
unable to load shared library
'/home/faculty/hodgess/R-2.6.0/library/Rmpi/libs/Rmpi.so':
/home/faculty/hodgess/R-2.6.0/library/Rmpi/libs/Rmpi.so: undefined symbol:
lam_mpi_double
Error in library(Rmpi) : .First.lib failed for 'Rmpi'
Error in dyn.unload(file.path(libpath, "libs", paste("Rmpi",
.Platform$dynlib.ext, :
dynamic/shared library
'/home/faculty/hodgess/R-2.6.0/library/Rmpi/libs/Rmpi.so' was not
loaded>
>
> q()
Save workspace image? [y/n/c]: y
[hodgess at gator bin]$ pwd
/home/faculty/hodgess/R-2.6.0/bin
