Displaying 20 results from an estimated 1000 matches similar to: "Building with MKL on Ubuntu"
2008 Jan 25
4
Problem building R with Intel MKL v10 BLAS
NO
Hi. I'm not sure if this is an R-help or R-devel problem, so I'm
starting here in the hope that someone can help (and willing to go to
the other list if it's more appropriate). I think I am following all of
the instructions in the various manuals, but clearly I am missing something.
I have an Intel EM64T Dell with 2 dual-core Xeon processors running Red
Hat EL5. I would
2009 Mar 16
6
R with MKL
Hi,
I have seen a lot of problems from people trying to compile R with
MKL. So I am writing my experience in case it helps and to ask one
question. I installed R-2.8.1.patched in Ubuntu 9.04 (gcc 4.3.3) using
MKL 10.1.1.019.
I configured correctly (following MKL userguide) with :
sudo ./configure --with-blas="-I/opt/intel/mkl/10.1.1.019/include
-L/opt/intel/mkl/10.1.1.019/lib/em64t
2009 Mar 16
6
R with MKL
Hi,
I have seen a lot of problems from people trying to compile R with
MKL. So I am writing my experience in case it helps and to ask one
question. I installed R-2.8.1.patched in Ubuntu 9.04 (gcc 4.3.3) using
MKL 10.1.1.019.
I configured correctly (following MKL userguide) with :
sudo ./configure --with-blas="-I/opt/intel/mkl/10.1.1.019/include
-L/opt/intel/mkl/10.1.1.019/lib/em64t
2008 Apr 18
1
configure can't find dgemm in MKL10
Hi,
I'm trying to follow the R-admin instructions for using MKL10 as the external BLAS compiling R-2.6.2 under Linux on a RH EL head node of a cluster. The configure process seems to have problems when it checks for dgemm in the BLAS. I'm using configure as:
./configure CC=icc F77=ifort --with-lapack="$MKL" --with-blas="$MKL" where $MKL is defined as in R-admin
2008 Jul 03
1
--enable-BLAS-shlib conflict with --with-lapack in configure?
Dear developeRs,
I'm trying to build R (2.7.1, on an x86_64 running Linux, but I believe
I have observed this on x86 and with earlier versions of R as well)
using external BLAS and LAPACK libraries _and_ generating libR.so,
libRblas.so and libRlapack.so.
Without --enable-BLAS-shlib, configure is able to find and use the
external LAPACK library:
./configure \
2008 May 27
3
MKL Patch
And here's a patch for Intel Math Kernel Library. This allows commercial
users of Speex to use a high-speed FFT library that isn't GPL'd. (You do
need to pay for it though). This is 3 times faster than the default FFT
in speex, and also faster than FFTW3 since MKL has native support for
the complex packing Speex uses.
Since Intel hasn't supplied any pkg-config files, and which
2008 May 29
2
problem building R packages on RHEL 4 Linux with Intel compilers
I would like to build R and packages with the Intel 10.1 compilers in RHEL4.
Using the flags below, I can successfully build R using a vanilla
./configure, but when I install new packages they build with gcc. My
sysadmin suggested adding the flags to ./configure as illustrated below, but
then the R build blows up with the config tail output that follows far
below. It looks like gcc is still being
2017 Apr 21
1
Intel MKL compiling issue
> I would appreciate any insights over compiling R 3.4 with Intel MKL -- I have been successful until R 3.3.3 but now it stops complaining about pcre though it worked without Intel MKL as follows,
I successfully built R-rc_2017-04-19_r72555.tar.gz with icc & MKL on centos 7 with this:
# https://software.intel.com/en-us/articles/build-r-301-with-intel-c-compiler-and-intel-mkl-on-linux#
2005 Feb 23
1
BLAS or ATLAS?
I believe that actually means configure was able to use the BLAS you
specified (MKL in this case). You can scan through config.log to make sure.
Andy
> From:
>
> Fedora Core 3
>
> I installed the Intel MLk,
>
> and tried : --with-blas="-lmkl -lguide -lpthread"
>
> and got : External libraries: readline, BLAS(generic)
>
> thus I'm
2010 Aug 06
0
Problems using external BLAS
I have problems building R 2.11.1 with an external BLAS. I've tried
several with several libraries:
# ACML:
export LD_LIBRARY_PATH=/site/VERSIONS/acml-3.6.0/gfortran64_int64/lib
BLAS=--with-blas="-L/site/VERSIONS/acml-3.6.0/gfortran64_int64/lib -lacml"
LAPACK=--with-lapack
# MKL 11:
BLAS=--with-blas="-L/site/VERSIONS/intel-11.1/mkl/lib/em64t -lmkl_gf_lp64 -lmkl_sequential
2005 May 26
3
Buidling R on Linux (Itanium) fails (PR#7897)
Full_Name: Reinhold Bader
Version: 2.1.0
OS: SLES 9
Submission from: (NULL) (129.187.48.1)
I tried to build R using the Intel compilers (icc, ifort) and the Math Kernel
Libraries
for BLAS/LAPACK
Optimizations used were -O3, and the
FPICFLAGS="-fpic"
was exported.
The build failed with the following error message:
...
dumping R code in package 'methods'
Saving namespace image
2012 Dec 28
1
linux multi-threaded compilation is running only on one processor
Hello,
I compiled R-2.15.2 with linux intel compilers (see below).
when I execute some R code on a // 4 proc x 4 cores // server
(export MKL_NUM_THREADS = 16)
very often I have the situations where only one processor (4 cores) is
active instead of 4 (16 cores) !
do you know this fact depends on what ?
thank you !
P.S.
many functions of R are single-threaded,
is there a simple way to make them
2011 Nov 03
4
How to used MKL (not revolution-mkl) with Debian packages
Hi folks,
if you want to use MKL (the fast BLAS I have tested on my Thinkpad T410)
with the R 2.14.0 built as Debian/Ubuntu packages available on CRAN mirror,
the following tricks may works for without some known side-effects (likes
openmp breaking issues), you may try to build your own libblas.so.3gf.0
with following command:
$ gfortran -L/opt/intel/lib/intel64 -liomp5
2012 Feb 10
1
Out of date instructions to build R using MKL
Hi!
I've been playing with MKL for a few days and I noticed the instructions
in the R Installation Administration manual [1] no longer apply. It
seems that since version 10.0 (the one used by the manual),
libmkl_lapack.so has been renamed/split (although the official
explanations seem to imply this was already the case in 10.0 [2]).
As a consequence, the instructions for dynamic linking no
2005 Feb 17
3
help on deleting NAs
Dear R friends
My goal is to eliminate this specific group(1) if the # of NAs in this
group greater than
50%(specifically say greater than 3). Would you please show me how to do
it.
I have a sample data as following:
Thanks a lot.
Kevin Lin
y group f1 f2 f3
30 NA 1 1 1 1
27 NA 1 1 2 2
48 NA 1 2 1 2
40 -0.6066416 1 2 2 1
24
2015 Sep 04
2
Build R with MKL and ICC
On Wed, 2015-09-02 at 20:49 +0200, arnaud gaboury wrote:
> On Wed, Sep 2, 2015 at 7:35 PM, arnaud gaboury <arnaud.gaboury at gmail.com> wrote:
> > After a few days of reading and headache, I finally gave a try at
> > building R from source with Intel MKL and ICC. Documentation and posts
> > on this topic are rather incomplete, sometime fantasist et do not give
> >
2015 Sep 02
4
Build R with MKL and ICC
After a few days of reading and headache, I finally gave a try at
building R from source with Intel MKL and ICC. Documentation and posts
on this topic are rather incomplete, sometime fantasist et do not give
much explanations about configure options.
As I am not sure if mine is correct, I would appreciate some advices and hints.
OS: Fedora 22
parallel_studio_xe_2016
Hardware : 8 Thread(s) per
2017 Apr 20
2
Intel MKL compiling issue
Dear R-developers,
I would appreciate any insights over compiling R 3.4 with Intel MKL -- I have been successful until R 3.3.3 but now it stops complaining about pcre though it worked without Intel MKL as follows,
./configure LDFLAGS=-L/genetics/data/software/lib CFLAGS=-fPIC -I/genetics/data/software/include --enable-R-shlib
I have used,
export MKL_NUM_THREADS=15
export
2017 Apr 20
1
Intel MKL compiling issue
On our Scientific Linux 6, there is
gcc --version
gcc (GCC) 4.4.7 20120313 (Red Hat 4.4.7-17)
and later version (a symbolic at HOME to the system directory),
export MKL=/home/jhz22/11.3.3.210/mkl
export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:$MKLROOT/lib/intel64
./configure --prefix=/home/jhz22 LDFLAGS=-L/home/jhz22/lib CPPFLAGS=-I/home/jhz22/include \
--enable-R-shlib --with-lapack \
2015 Aug 22
2
Build optimized R : openblas, MKL, ATLAS
I want to build R optimized, with either MKL, OpenBLAS or ATLAS.
My OS: Fedora 22
Hardware: CPU op-mode(s): 32-bit, 64-bit Byte Order: Little Endian
CPU(s): 8 Thread(s) per core: 2 Vendor ID: GenuineIntel Model name:
Intel(R) Core(TM) i7-2600K CPU @ 3.40GHz
I am a little confused when it comes to choose a method and would like
to hear your experiences. If I am right, I have 3 possibilities:
-