similar to: How to verify R is running with multi-threads

I'm trying to build R-alpha using the ATLAS libraries as described in the R-admin manual, section A.3.1.1 (BLAS) and A.3.2 (LAPACK). I built ATLAS with LAPACK as described in the ATLAS documentation, and the ATLAS version is the latest, 3.9.10. The platform is openSUSE 11.1 x86_64 with GCC 4.3.2. "configure" is finding the ATLAS BLAS all right, but it is not finding the ATLAS

Hello, I just had a lot of trouble compiling a version of R which uses a recently-compiled version of ATLAS and LAPACK. ATLAS and LAPACK compiled correctly and installed fine and passed all of their checks (and yes, I did compile them all with -fPIC as is required for R). This was my initial configure line: ./configure --with-x --enable-threads=posix --with-blas="-L/usr/local/lib

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

Hi, I installed F14 on release, but was diquieted to note that my symlinked GotoBLAS (http://cran.r-project.org/doc/manuals/R-admin.html#Shared-BLAS, foot of paragraph) prevented R (compiled from source, no special configure options) from loading - everything had been fine on F < 14. It seems that: cat /selinux/booleans/allow_execstack is 1 1 on my RHEL systems, but became (?) 0 0 in F14.

Hello: I want to use values from the output of linear models done using permuted data to construct a random distribution. The problem I am having is the extraction of a value, say the p-value or the regression coefficient, from the summary of a linear model. When summarizing a linear model I get this: Call: lm(formula = fitness ~ mm) Residuals: Min 1Q Median 3Q Max

Hello. I am a Linux neophyte and know almost nothing ?about compiling, so I would appreciate any help and advice y'all would care to offer. I am trying to compile the 64 bit version of R using a tuned ATLAS and LAPACK (ATLAS 3.9.24). I am running Ubunto 10.04 LTS (through wubi, FWIW). The ATLAS and LAPACK files (atlas.so, f77blas.so, lapack.so, and cblas.so) are sitting in the folder

I have a data set for different time intervals. The data has three comment lines before data for each time interval. For each time interval there are 500 data points. I want to change the dataset such that I have the following format: t1 t2 t3 ................ 0.00208 0.00417 0.00625 ................. a1 a2 a3 ...................

If I configure in R-patched and R-devel, with the same options to configure, then R-patched says checking for ATL_xerbla in -latlas... yes checking for cblas_dgemm in -lcblas... yes checking for dgemm_ in -lf77blas... yes which R-devel says checking for ATL_xerbla in -latlas... yes checking for cblas_dgemm in -lcblas... yes checking for dgemm in -lf77blas... no This is on the same computer and

Hello. I know almost nothing about Linux, so I apologize if the answer to this is obvious. I am trying to compile R with ATLAS (successfully compiled 3.9.24 on Ubuntu 10.04 64 bit). I configured with: ./configure --enable-R-shlib --enable-BLAS-shlib --with-blas="-L/usr/local/atlas/lib -lf77blas -latlas" --with-lapack="-L/usr/local/atlaslib -llapack -lcblas" --with-x and I

Hello. I know almost nothing about Linux, so I apologize if the answer to this is obvious. I am trying to compile R with ATLAS (successfully compiled 3.9.24 on Ubuntu 10.04 64 bit). I configured with: ./configure --enable-R-shlib --enable-BLAS-shlib --with-blas="-L/usr/local/atlas/lib -lf77blas -latlas" --with-lapack="-L/usr/local/atlaslib -llapack -lcblas" --with-x and I

So, tried again from scratch. Again, CentOS 5.3, which is essentially RHEL 5.3. ./configure --with-blas="-L/opt/acml4.3.0/gfortran64/lib -lacml" In config.log, get things like configure:37199: checking for dgemm_ in -L/opt/acml4.3.0/gfortran64/lib -lacml configure:37230: gcc -std=gnu99 -o conftest -g -O2 -I/usr/local/include -L/usr/local/lib64 conftest.c

Has anyone succeeded in getting a parallel BLAS, such as Goto's BLAS, installed on a machine running Ubuntu 11.10? I currently have the libatlas3gf-base package installed on a machine with an AMD Athlon X4 processor. I tried to install the libopenblas-base and libopenblas-dev packages but there seemed to be a glich related to having both libopenblas and libatlas3gf installed so that when I

I think the thing that is missing is a simple way for end users on windows to replace blas/lapack libraries with MKL-a package that you install that puts the libraries in the right place. Microsoft provides something for their distro, but we don't have the equivalent if you get R from cran. On 29 October 2017 at 22:01, Kenny Bell wrote: | User here: incorporating Intel's MKL, as MRO

I'm setting up an Ubuntu?virtual machine?that will use 4-Intel Xeon CPU x5650.? I'd like to compile R with a BLAS but the question is whcih one.? Seems like the only free ones are GotoBLAS which I'm not sure is being maintained for newer CPUs and OpenBLAS for Loongson CPUs.? I saw a favorable report on OpenBLAS

I feel like Marlon Brando in "On the Waterfront" where he's told "It's not your night, kid", except for me it has been the last two months trying to debug memory problems. Now I can't even install an old version of this package on a netbook running the Ubuntu 10.10 netbook remix because it can't find the libraries libf77blas and libatlas. I have even gone to

Ok, moved to R-devel. I tried to build R-2.3.1. Since I intent to distribute this tuned R to all other who have a computer like mine here at work I thought it was best to stay with the latest stable release. About your suggestion, I could'n find xerblas.o file. And I don't know how to edit libf77blas.a. I tried to open it with VIM (http://vim.sf.net/) but there was a lot of strange

Hi I just read the thread on gotoBLAS, as well as the excellent vignette of gcbd. I still have some confusion and would like to ask very basic questions, hope I am not taking too much of your time. The point that retained my attention was the question of using implicit (multi-threaded blas) versus explicit (parallel code) optimisation. As I understood, the ideal would be to use a

Can one of you give me an R program that displays the benefits an accelerated BLAS in R? Here's why I ask, in case you wonder: In a linux cluster, I've hit some bumps in the road. The worst one by far was that I installed R, then GotoBLAS2 with default settings, and after that, jobs using Rmpi were *really* *really* slow. I mean horrible. If a job took 15 minutes when run by itself,

Dear All, As suggested in the reply from Dirk Eddelbuettel to my post to R-dev I am reposting here as the problem still persists. Please see my post to R-dev under same heading for additional description if needed. In summary I am starting from a new installation of Ubuntu 10.10 as the single operating system on a reformatted disk with just the OS, ESS and emacs installed before installing R

A while back I posted to this group that I was having difficulty compiling packages that used BLAS and Lapack on an Ubuntu 32-bit system. I looked a little further into the issue and discovered that the /usr/lib/R/etc/Makeconf files are different on the 32-bit and 64-bit Ubuntu packages maverick/r-base-core_2.12.1-1maverick0_i386.deb and the corresponding 64-bit version. The Make variable