Displaying 20 results from an estimated 2000 matches similar to: "Compiling R Packages"
2006 Mar 09
1
R2.2.1-patched build failed with PGI 6.1 on x86-64
Hi All,
While attempting to build R-patched using the Portland Group compiler suite
on our dual Opteron 250 box running Scyld 29cz5 (based on RH, kernel
2.4.29), I get:
make[5]: Leaving directory
`/home/andy/Rbuild/R221-pgi/src/library/tools/src'
make[5]: Entering directory
`/home/andy/Rbuild/R221-pgi/src/library/tools/src'
pgcc -I../../../../include -I/include -I/include/CC -fpic
2005 Aug 23
1
compile R with Portland Group compiler
Hi,
Can anyone advise me on how to compile R with Portland Group
compiler on a Opeteron machine with Red Hat Enterprise Linux WS release
4 installed?
I've edit config.site file to pick portland group compilers instead of
gcc. Here is the list of modified flags:
CC=/usr/pgi/linux86-64/6.0/bin/pgcc
CFLAGS='-g -O2'
CPPFLAGS='-I/usr/pgi/linux86-64/6.0/include
2005 Aug 31
1
Build Portland Group Compiler
Hi,
I built R with Portland Group compiler, but I noticed one thing that
when I ran configure for the first time on AMD machine, I got the
following error:
checking whether the C compiler works... configure: error: cannot run C
compiled programs.
If you meant to cross compile, use `--host'.
See `config.log' for more details.
so I tried to set host=x86_64-unknown-linux-gnu,
2007 Oct 04
1
Rmpi_0.5-4 and OpenMPI questions
Many thanks to Dr Yu for updating Rmpi for R 2.6.0, and for starting to make
the changes to support Open MPI.
I have just built the updated Debian package of Rmpi (i.e. r-cran-rmpi) under
R 2.6.0 but I cannot convince myself yet whether it works or not. Simple
tests work. E.g. on my Debian testing box, with Rmpi installed directly
using Open Mpi 1.2.3-2 (from Debian) and using 'r' from
2006 Mar 10
2
problem building R-patched on x86-64 with PGI 6.1
Dear R-devel,
[I'm not sure if this is appropriate for R-devel. If not, I'm more than
happy to move it to R-help.]
As those of you who saw my post on R-help know, I've been trying to build
R-patched on a dual Opteron box running Scyld Beowulf, using the PGI 6.1
compilers. The build went fine, but I couldn't get it to pass make
check-all. Jennifer Lai, who reported success with
2011 Sep 09
1
R CMD INSTALL configure.args and CC customization
I am running into the following issue that has been previously
reported on the R-devel mailing list. The short version is that I'm
writing a package for MPI, and I'd like to change CC and SHLIB_LD to
"mpicc". Trying to change them in Makevars.in has no effect, because
the values are clobbered by /etc/R/Makeconf. Will the following
changes to Makeconf.in introduce any problems?
2006 May 18
0
R-devel and PGI 6.0 compile error
I am trying to compile R-devel (R-devel_2006-05-17.tar.gz) on Red Hat
Enterprise Linux AS release 3 (Taroon Update 7) using the Portland Group
compiler 6.0. (I have not yet successful compiled R on this
configuration, so I don't know if this is a new problem.) I get an error
pgcc -L/usr/local/pgi/linux86-64/6.0/libso -L/usr/lib64 -o dftables
dftables.o
../dftables chartables.h
2007 Nov 26
1
Problem with configure's detection of glob on 2.6.0 (PR#10468)
Full_Name: Mike Pacey
Version: 2.6.0
OS: SuSe Linux 9.3 x86_64
Submission from: (NULL) (194.80.32.10)
A "vanilla" version of R configures and compiles without a problem on my system.
Switching to using the PGI compiler configures correctly (see the values at the
bottom fo thismessage), but compilation aborts with:
pgcc -I../../src/extra/zlib -I../../src/extra/bzip2
2006 May 11
0
PGI 6.1 compile error
I am trying to compile R-2.3.0 (both first release and patched
2006-05-10) on Red Hat Enterprise Linux AS release 3 (Taroon Update 7)
using the Portland Group compiler version 6.1 and the notes from
Jennifer Lai on p33 of "R Installation and Administration" version 2.3.0
(2006-04-24). I have not used this compiler before, so it is possible
things are messed up more than usual, even
2005 Sep 02
0
Build R with ATLAS
Hi,
I followed this message,
https://stat.ethz.ch/pipermail/r-devel/2004-February/028942.html, to
compile ATLAS with gcc and g77 on AMD Opteron. I then followed the
instructions on this message,
https://stat.ethz.ch/pipermail/r-devel/2004-February/028966.html, to
convert static libraries to dynamic libraries.
However, when I tried to configure R-devel, I got the following error
2006 Oct 09
2
Installing Rmpi on 64-bit Linux Athlon
Hello,
We have recently added a 64-bit 2 x Dual-Core Athlon server running Red
Hat Enterprise Linux AS release 3 to allow for processing of large data
sets (>4GB) in R. To integrate this server into our Linux cluster, I
have been trying (unsuccessfully) to use Rmpi/lam-mpi to parallel
process some of our scripts. While I have successfully compiled R 2.4.0
and lam-mpi 7.1.2 on this server using
2011 Mar 07
1
Rmpi fails to install
I try to install Rmpi as root with install.packages("Rmpi").
It fails with:
...
checking for x86_64-pc-linux-gnu-gcc -std=gnu99 option to accept ISO
C89... none needed
I am here /usr and it is OpenMPI
Trying to find mpi.h ...
Found in /usr/include
Trying to find libmpi.so or libmpich.a ...
Found libmpi in /usr/lib
checking for openpty in -lutil... yes
checking for main in -lpthread...
2009 Jun 11
1
help installing Rmpi
Hello R users and developers,
I would like to install Rmpi so that I may take advantage of all of
the CPUs in my computer, but I cannot get it to install and I am not
very good with linux so it is adding to the headache. I have looked
through the help archive, but I have not been successful at getting
Rmpi to work. I am not sure if I am even installing openMPI correctly
in linux. I would really
2014 Mar 12
1
2 versions of same library loaded
Can anyone help me understand how I got 2 versions of the same library
loaded, how to prevent it, and what the consequences are? Running under
Debian GNU/Linux squeeze.
lsof and /proc/xxx/map both show 2 copies of several libraries loaded:
/home/ross/install/lib/libmpi.so.1.3.0
/home/ross/install/lib/libopen-pal.so.6.1.0
/home/ross/install/lib/libopen-rte.so.7.0.0
2007 Aug 27
2
Rmpi and x86
Dear R Gurus:
Is there a problem with Rmpi on x86 with SUSE 10.1, please?
I've tried everything and it still won't load.
Has anyone else dealt with this please?
Thanks,
Edna Bell
2010 Jan 20
0
R CMD INSTALL configure.args and CC customization
Hi, everybody.
I hope the new year is treating you well.
In a Rocks Cluster Linux system (that's Centos 5.2 based), I have
built R-2.10 and it runs well.
While fiddling with MPI libraries and R packages, I've noticed a few
little wrinkles.
This comes as no surprise to the veteran R programmers, but let me
share to the new guys the following gem:
There is a difference between . and -
2011 May 27
1
Help with Rmpi install
Hello R-help!
I am a systems administrator for the University of Southern California. I take care of it's general-purpose research cluster, and have recently been asked to provide access to a parallelized R platform. I do not have any previous experience using R, and have only ever had to do anything more then 'yum -y install R'.
We have a myrinet MPI network, and use mpich1 as our
2006 May 09
1
Rmpi instlation problem (PR#8846)
Ive tryed this:
R CMD INSTALL Rmpi_0.5-2.tar.gz
But occurred this error:
gcc -shared -L/usr/local/lib64 -o Rmpi.so conversion.o internal.o RegQuery.o
Rmpi.o -lmpi -llam -lutil -lpthread -L/usr/local/lib64/R/lib -lR
/usr/lib64/gcc-lib/x86_64-suse-linux/3.3.3/../../../../x86_64-suse-linux/bin
/ld: /usr/local/lib/libmpi.a(infoset.o): relocation R_X86_64_32 can not be
used when making a shared
2008 Jan 16
3
Rmpi on Linux x86_64 GNU/Linux
I'm having trouble with R CMD INSTALL Rmpi_0.5-5.tar.gz
--configure-args=~/lam
lam is is installed locally.
lamboot -d (or lamboot-d and also recon) works. make -k check from the
lamtest suite passes all tests.
Is this is problem with the -fPIC compiler as in the message? Should it
be modified in the Makefile?
Any help or comments are appreciated, thanks.
* Installing to library
2011 Jan 07
1
Trouble with installing Rmpi package
Hi,
I am having a problem with installing Rmpi package on redhat linux machine.
The R I am using is version 2.10.1. Here’s what happens.
> install.packages( ''Rmpi'' )
--- Please select a CRAN mirror for use in this session ---
Loading Tcl/Tk interface ... done
trying URL ''http://cran.cnr.Berkeley.edu/src/contrib/Rmpi_0.5-9.tar.gz''
Content type