search for: gotoblas2

Hi, I'm relatively new to R on Ubuntu (moving from Windows), and I'm trying to get GotoBLAS2 working. I installed (from a CRAN mirror) the pre-built binaries of R (which, as far as I know, is compiled as a shared library) on Ubuntu 10.10 using apt-get install r-base r-base-dev I successfully built GotoBLAS2 from source, copied the library to /usr/lib and created s symbolic link from libb...

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, outside of MPI, it took 1 full day when run inside MPI. Literally the same job. I learned later that GotoBLAS2 defaults to allow threads equal to the...

I've attempted to use the optimized GotoBLAS2 library with a freshly compiled R-2.11.1 patched on 64-bit Ubuntu 10.4. (See details below). When I run this version of R, the timings are not different than the original install, and only one core is used in test computations. Can someone point out my error? Thanks. --Dale Details ... I'm...

...; One last follow-up. Debian's Atlas maintainer has started to work in the > OpenGoto packaging. There will be proper Goto packages now that the license > is better, but it may take a while. It took years to get Atlas packaged > 'right' so don;t expect anything too soon. The gotoblas2-helper package is > still useful for the 'here and now'. Unfortunately it is broken :( Link not found at ./getGotoBLAS2 line 83

Hi all, I have a problem with cpu affinity in my R-2.11.1 installation compiled against ATLAS running on a Linux (Ubuntu 10.04) cluster under GridEngine. I wish to use Grid Engine's core binding feature to bind user processes into the number of cores they request on the cluster, thus preventing badly behaved multi-threaded libraries from consuming more cores than requested. An example of

Hi, I put below Rblas.dll(GotoBLAS2 for Win64). http://prs.ism.ac.jp/~nakama/SurviveGotoBLAS2/binary/windows/x64/Rblas.dll It's a tryal phase. -- EI-JI Nakama? <nakama (a) ki.rim.or.jp> "\u4e2d\u9593\u6804\u6cbb"? <nakama (a) ki.rim.or.jp>

Hello, This simple SVD calculation (commands are copied immediately below) crashes on my Ubuntu machine (R 2.13.0). However it worked fine with R.12 and Ubuntu 10.04, and it also works fine on my Windows 7 machine with R 2.13, so I suspect there's a problem with (my?) Ubuntu and / or R. I'm using the R distribution that is accessible with Ubuntu's repositories manager, I am not

...occurred. In a virtual machine, I rolled back R to version 2.12.1, the version found in the main Ubuntu repository, and R-benchmark-25.R worked without error. So it appears that rolling back R to 2.12.1 may be a solution (R 2.12 is no longer available as a deb on CRAN). I have not tested the GOTOBlas2 libraries. Ian Fellows mentions issues on the Mac side of things (http://groups.google.com/group/deducer/browse_thread/thread/8c9a8af0465f9b9b), although I am not sure if this applicable as Ubuntu 11.04 is based on gcc 4.5. If anyone has the revolution-mkl package working with R 2.13 or has...

Dear all, I am estimating a mixed-model in Ubuntu Raring (13.04¸ amd64), with the code: fm0 <- lme(rt ~ run + group * stim * cond, random=list( subj=pdSymm(~ 1 + run), subj=pdSymm(~ 0 + stim)), data=mydat1) When I check the approximate variance-covariance matrix, I get: > fm0$apVar [1] "Non-positive definite

...tOS Linux cluster. That led me to the question of "which BLAS is fastest?" Dirk E referred me this morning to the R admin manual. The standard R compilation creates a shared blas library libRblas.so and then one can easily 'swap in a different shared library' to experiment with GotoBLAS2 or Atlas or whatnot. I found that quite amazing! Then I booted up my Ubuntu laptop to try this out. I have the Ubuntu deb packages from CRAN, version 2.10. In r-core-base, there is no libRblas.so. I have: ii r-base 2.10.1-2karmic0...

Dirk suggested I move this thread over here. I am trying to get a multithreaded (multi CPU) version of ATLAS working with R, and have been unable, thus far, to get it working. Has anyone gotten an multithreaded version of ATLAS working on Debian (64 bit)? I've tried this: apt-get source atlas -t unstable cd atlas-3.8.3 DEFAULTS=n fakeroot debian/rules custom but it is APPEARING to only

Hi, with small matrices eigen works as expected: > eigen(cbind(c(1,4),c(4,7)), only.values = TRUE) $values [1] 9 -1 $vectors NULL > eigen(cbind(c(1,4),c(4,7))) $values [1] 9 -1 $vectors [,1] [,2] [1,] 0.4472136 -0.8944272 [2,] 0.8944272 0.4472136 > eigen(cbind(c(1,-1),c(1,-1))) $values [1] -3.25177e-17+1.570092e-16i -3.25177e-17-1.570092e-16i $vectors

...e : openblas-0.3.5-1.fc28.src.rpm Repo : @System >From repo : updates Summary : A version of OpenBLAS for R to use as libRblas URL : https://github.com/xianyi/OpenBLAS/ License : BSD Description : : OpenBLAS is an optimized BLAS library based on GotoBLAS2 1.13 BSD : version. The project is supported by the Lab of Parallel Software and : Computational Science, ISCAS. http://www.rdcps.ac.cn --------------------------------------------------------------------------- I summarize what has been reported till: Failure in these...

I get the failure message. To be specific: adcomp.git>R CMD BATCH --quiet test_nlminb.R adcomp.git>cat test_nlminb.Rout > f <- function(x) sum( log(diff(x)^2+.01) + (x[1]-1)^2 ) > opt <- nlminb(rep(0, 10), f, lower=-1, upper=3) > xhat <- rep(1, 10) > abs( opt$objective - f(xhat) ) < 1e-4? ## Must be TRUE [1] FALSE My system is described by: adcomp.git>uname