similar to: make check fails with default libblas

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

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

Dear All, I just apt-get source r-base-core and noticed that file "rules" under ./r-base-3.2.4-revised/debian contains (lines 277 to 279) --with-system-bzlib \ --with-system-pcre \ --with-system-zlib \ I wonder if these are still necessary and, in fact, when building R alpha (specifically, R-alpha_2016-03-21_r70361.tar.gz) I get a warning saying that those options are not

On Wed, 30-12-2015, at 12:44, Dirk Eddelbuettel <edd at debian.org> wrote: > On 30 December 2015 at 05:00, Dario Strbenac wrote: > | Good day, > | > | In section A.2, the manual advises "Linux users will want the urw-fonts package". However, this package only seems to be available for RedHat Linux and Fedora Linux. What about for Debian or Ubuntu ? There is no

Dear All, A 1-year postdoctoral position in Computational Biology/Bioinformatics/Evol. Biology/Statistics is available in Madrid, Spain. Brief description: Simulation and analysis of evolutionary processes in cancer. Requirements: - Postdoc younger than 30 years. - Be registered as resident ("estar empadronado") in Madrid, Spain, since 08-August-2016. - Be registed in the

On Mon, 03-07-2017, at 07:58:41, Dirk Eddelbuettel <edd at debian.org> wrote: > On 2 July 2017 at 23:24, Kirill M?ller wrote: > | On 02.07.2017 22:01, Dirk Eddelbuettel wrote: > | > On 2 July 2017 at 21:39, Kirill M?ller wrote: > | > | Hi > | > | > | > | An upgrade to R 3.4.1 on Ubuntu removed the default setting of > | > | R_LIBS_USER in /etc/R/Renviron.

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

On 30 December 2023 at 23:49, Ramon Diaz-Uriarte wrote: | All is good. (Just for the sake of curiosity, and if you have the time: why did you find those incantations suspicious?) Memory is fuzzy and no ECC in my wetware :) but as I seem to recall it had to do with my fears over filenames not being standardized enough / this interfering with the update-alternatives mechanism. May well have been

On Wed, 30-12-2015, at 21:08, Dirk Eddelbuettel <edd at debian.org> wrote: > On 30 December 2015 at 20:07, Ramon Diaz-Uriarte wrote: > | > | > | > | On Wed, 30-12-2015, at 12:44, Dirk Eddelbuettel <edd at debian.org> wrote: > | > On 30 December 2015 at 05:00, Dario Strbenac wrote: > | > | Good day, > | > | > | > | In section A.2, the manual

On Mon, 03-07-2017, at 12:18:36, Dirk Eddelbuettel <edd at debian.org> wrote: > On 3 July 2017 at 13:05, Ramon Diaz-Uriarte wrote: > | If I might chime in, I'd like to add my vote to the "users should be able > | to use install.packages and should be able to install bioconductor > | packages with biocLite". > | > | Longer story > | ============ > | >

Good day, In section A.2, the manual advises "Linux users will want the urw-fonts package". However, this package only seems to be available for RedHat Linux and Fedora Linux. What about for Debian or Ubuntu ? There is no urw-fonts package for them. Are there any other packages not mentioned that are important for these two distributions ? -------------------------------------- Dario

Hi there, On 1 December 2017 at 23:24, G?ran Brostr?m wrote: | Dirk, | | thanks for your help. At work I have (ubuntu 16.04): | | ii libblas-common 3.6.0-2ubuntu2 amd64 Dependency package for | all BLAS implementations | ii libblas-dev 3.6.0-2ubuntu2 amd64 Basic Linear Algebra | Subroutines 3, static library | ii libblas3 3.6.0-2ubuntu2 amd64 Basic Linear

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 >

Den 2017-12-01 kl. 20:24, skrev Dirk Eddelbuettel: > > On 1 December 2017 at 19:55, G?ran Brostr?m wrote: > | Hello, > | > | the following is a part of a question asked on R-help. I realized that > | it is better suited for asking here. Apologies for the cross-posting! > | > | I'm on Ubuntu artful, and upgraded with 'apt'. Then > | > |

I am trying to install R.2.1.1 under Linux FC4 using RPM. During the installation I get the following message: The following package could not be found on your system. Installation cannot continue until it is installed. The package in question of libblas.so.3. Does anyone know where I can get the package? Can I use RPM to intall the package? Thanks, John John Sorkin M.D., Ph.D. Chief,

Hi, I can''t find any forum that''s directly applicable to opensuse. My apology if I post on a wrong mailing list. But I really like R and want to use it on linux. The problem is I''m new to linux. I have opensuse 11.0. I download the x86_64 installer from opensuse repo. I run the installer and got error saying that libgfortran.so.3 is needed by libblas. I found

Hello To update from R 2.6 to 2.8 (on Ubuntu 8.04 both) I had to install new tcl and liblapack packages (excuse me it is in french): > sudo apt-get install r-base-dev > Lecture des listes de paquets... Fait > Construction de l'arbre des d?pendances > Lecture des informations d'?tat... Fait > Les paquets suppl?mentaires suivants seront install?s : >

On Tue, 21 May 2024 07:08:02 -0500 Dirk Eddelbuettel <edd at debian.org> wrote: > You cannot undo what it is in R's own /etc/R/Makeconf via a > programmatic way via some sort of option or alike. I think this is about the following line in debian/rules: optimflags = `DEB_BUILD_MAINT_OPTIONS=optimize=-lto dpkg-buildflags --get CFLAGS`

Hello, the following is a part of a question asked on R-help. I realized that it is better suited for asking here. Apologies for the cross-posting! I'm on Ubuntu artful, and upgraded with 'apt'. Then ---------------------------------------------------------------- goran at M6800:~/src/R-3.4.3$ /usr/bin/R /usr/lib/R/bin/exec/R: symbol lookup error:

Hello! I'm trying to install R-3.0.1 on an Ubuntu machine (64 bit, version 13.04). I have uninstalled and installed several times, but to no avail. I keep getting errors about missing ldpaths, and installing packages does not work at all. Here is the information: erin@erin-Lenovo-IdeaPad-Y480:~$ sudo apt-get install r-base Reading package lists... Done Building dependency tree Reading