similar to: problems loading blas with R 2.11.0~20100402-1

Emmanuel, On 30 August 2008 at 00:04, Emmanuel Charpentier wrote: | Dear list, | | Setup : Ubuntu Hardy + updates + backports + security + R repository on | a 3.2 GHz PIV dual-core processor. | | Bitten (again...) by the "I'll optimize my setup" bug, I tried to test | atlas. Following Dirk's advice on a not-so-recent post to R-help, I | tried "apt-get install -s

dear debian-R group: I am using the stock ubuntu binary R 3.0.1 for ubuntu raring but on cinnamon mint olivia 15. I read dirk's gcbd paper from a couple of years ago. it suggests that stock blas is pretty bad compared to the four main alternatives. of course, dirk also maintains the binaries for debian/ubuntu R, so he probably knows the answer off hand. I installed libatlas3-base

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

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

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

Hi, I'm using Ubuntu Hardy i386, and the R 2.7.1 Ubuntu packages from CRAN. The CRAN r-base-dev package depends on refblas3-dev or atlas3-base-dev, but octave3.0-headers depends on libblas-dev. The two blas packages seem to conflict, so r-base-dev and octave3.0-headers can't be installed together. Is this a known issue? Thanks, Gad $ sudo apt-get install octave3.0-headers Reading

Dear All, I am building R from source[1], following what is done in "rules" for building Debian's R. But the R I generate, in contrast to the standard Debian's R, will not change the BLAS and LAPACK libraries it uses when I change them via "update-alternatives". I have no idea what I am doing wrong (but, somehow, I've been quite capable of making the same

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

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

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

Hello, After upgrading to 2.7.2 this morning via the cran repository, I get the following error when calling R via the command line: Error in dyn.load(file, DLLpath = DLLpath, ...) : unable to load shared library '/home/jstumpf/R/i486-pc-linux-gnu-library/2.7/kernlab/libs/kernlab.so': libRlapack.so: cannot open shared object file: No such file or directory Fatal error: unable to

I just dumped Vista off a laptop and installed Ubuntu 10.10 (latest release) as the single operating system. I did all of the updates and then installed emacs and ess. Next I installed R by following the the usual instructions on the CRAN site. At this point all is working I am now in the process of installing the packages that I normally have installed. I am having a problem with the LAPACK

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

I've just updated to the latest R (2.14.2) on my Ubuntu Lucid box, and now the ggplot2 installed as a .deb package fails to work. $ R -e 'library(ggplot2)' Error in library(pkg, character.only = TRUE, logical.return = TRUE, lib.loc = lib.loc) : package ?proto? does not have a NAMESPACE and should be re-installed Calls: library -> .getRequiredPackages2 -> library Execution

I am not sure if this is an R development problem or not. I am starting with completely clean OS and and installing the latest version of R without trying to anything special but I am having trouble with the LAPACK library linking when I try to build packages that require them. I thought perhaps my problem may be if interest here. I just dumped Vista off a laptop formatted the disk and

On 15 March 2012 14:09, Simon Urbanek <simon.urbanek@r-project.org> wrote: > I thought I'll post this here since I could not find an answer anywhere I > searched: how to setup R with threaded BLAS on Debian/Ubuntu. > > First, neither Debian nor Ubuntu come with optimized ATLAS binaries, > simply because by definition they need to be optimized for a particular >

Hi, I'd like to install the optimized libraries on my Thinkpad with an Intel Core Solo chip, which apparently supports the following instruction sets: MMX, SSE, SSE2, SSE3 instruction sets, XD-Bit. In a recent r-help message, the following was said (by Dirk I think): <quote> Yes, on Ubuntu, use 'apt-get install atlas3-base' for basic tuned Atlas, or 'apt-get install

Hi, Dirk Eddelbuettel advised me to write here. Here is my original letter to him: I would like to enquire about package r-cran-rjava on Debian jesse. It seems that if default-jre package is not installed, but openjdk-7-jre is installed, then library(rJava) in R fails. I?ve been bitten by this today and I wonder whether this an issue of mine, or is this a possible bug. My server admin used

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

Rolf, Briefly as I don't have sufficient time to catch up on all these wordy emails... On 30 January 2019 at 15:18, Rolf Turner wrote: | On 1/30/19 2:03 PM, Dirk Eddelbuettel wrote: | > | Now *that* was a revealing suggestion! I did that and got: | > | | > | > Desired=Unknown/Install/Remove/Purge/Hold | > | > |