similar to: Compiling R with Intel compilers - recommended options?

Jim Lemon <bitwrit <at> ozemail.com.au> writes: > I have been thinking about how to reduce the number of basic questions that > elicit the ...ahem... robust debate that has occurred about how to answer The traffic on r-help could be reduced by creating a second list where more elementary questions are asked. There may be other ways to partition the universe of questions

Full_Name: Danny van Dyk Version: R-2.2.0 OS: Gentoo/AMD64 Submission from: (NULL) (83.129.50.65) I have successfully compiled R-2.2.0 using ifc-9.0.026 on my x86_64 box. The only (minor) change that hade to be made was adding fpicflags="-fPIC" to configure.ac in case F77 matches either "ifc" (old name) or "ifort" (new name). Please apply following patch: dvandyk

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

Hello r-bugs, I am running openSuse 11.0, with my new Intel 8500 (Penryn) C2D, and I want to use icc and ifort. I was able to get a working Goto BLAS, following Dr. Goto's instructions. That seems to work OK with gcc and gfortran. I get about 10% faster computations by using -O3 rather than -O2. I get faster results with Goto BLAS rather than the R BLAS. Now I want to make icc and ifort

> 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#

To whom it may concern: My OS: CentOS 5.5 R version: R-2.11.1 My questions are as follows: First, I inputted commands: ----------------------------- # ./configure --enable-R-shlib # make # make check ----------------------------- Everything goes well until "make check". screen log: ************************************** make[1]: Entering directory `/tmp/R-2.11.1/tests' make[2]:

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

Hi The cor function in the stats package calculates the correlation between columns of data, does anyone know if it is at all possible to calculate the correlation between rows instead ? Or is there an appropriate package or function that is more appropriate I'd like to calculate spearman & pearson correlations between rows. Many thanks Jason -- --------------------------------

Bugs compiling R-1.7.1 with Intel compilers icc and ifc, on x86-computer (Pentium IV) and linux operating system Hello, as there aren't many reports about that issue, I'll give a little report here. (Hope I don't bother anyone) The best thing about using icc and ifc are the warnings, because it is said that the Intel compilers are stricter and give more precise warnings than gcc.

>>>>> CanisMaior writes: > Bugs compiling R-1.7.1 with Intel compilers icc and ifc, > on x86-computer (Pentium IV) and linux operating system > Hello, > as there aren't many reports about that issue, I'll give a little > report here. (Hope I don't bother anyone) > The best thing about using icc and ifc are the warnings, because > it is said that

I'm compiling the latest stable build (2.7.0) from source using the Intel Compilers, following the hints in the R-admin guide. I'm using OpenSUSE 10.3 on a Intel Q6600 system. First let me explain a few things I did: 1: Download & Install all the Intel Compilers (as well as the Intel Math Kernel Library) (All defaults) 2: Set up my environment variables in profile.d, using the handy

Hi Team, I downloaded the R 3.0.2 and, built and installed it using Intel compilers (icc and ifort) from Intel parallel studio 2013, sp1. After performing make tried to check it using 'make check'. Most of the tests passed successfully but while checking a 'stats' package I saw many lines were printed which did not match the desired output. e.g. There

Hello Please find bug report attached. Thanks Matthew -- Matthew Gillman Team 105: Variation Informatics Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SA, UK Tel: 01223 834244 Ext. 4922 -- The Wellcome Trust Sanger Institute is operated by Genome Research Limited, a charity registered in England with number 1021457 and a company registered

Hi further to my upgrade question thanks for pointing me in the right direction any ideas how I get round the following problem: I'm trying to install on a Tru64 alpha ecs1h[jps]69: make `Makedeps' is up to date. `libappl.a' is up to date. `Makedeps' is up to date. `libnmath.a' is up to date. `Makedeps' is up to date. `libunix.a' is up to date. `Makedeps' is up

Hi All Not sure if this a bioconductor question or general R mailing list so apologies if this has gone to the wrong one................. When plotting dendrograms created by hclust you can "identify" clusters by clicking on the graphics and returning a list of what is contained in each cluster. However I'd like to be able to "zoom in" on specific clusters and plot

HI All sorry if this question has already been asked but I couldn't find anything that answered my question I have 24 columns of data that I'm trying to plot in heatmap.2 (gregmisc) and I'm having difficulty ordering them except in numerical sequence: I have transposed my matrix so it will appear with the dendrogram I want appearing at the top of the heatmap If I use either of

Guys, I'm using a Linux PC (Pentium IV, Mandrake 10.1) and I've just tried to compile the new R-2.1.0 release with both gcc/g77 (3.4.1) and icc/ifort (8.1). Of course everything went fine with the GNU compilers. After checking the archives of the mailing list I tried compiling with the Intel compilers using the following options: CFLAGS = '-O2 -mp -prec_div' CXXFLAGS =

Hi, I got the following problem when I type make. The error is not enough verbose to me so I can find the problem. Please cc me, I'm not subscribed. Thanks, Mathieu --------------------------- make[4]: `vfonts.so' is up to date. building system startup profile building package 'base' all.R is unchanged ../../../library/base/R/base is unchanged dyld: lazy symbol binding failed:

I am having trouble compiling R-2.6.2 on suse linux x86_64 using the intel compiler. I read section C.2.1 Intel compilers in the R Installation and Administration manual, and put CC=icc CFLAGS="-g -O3 -wd188 -ip" F77=ifort FFLAGS="-g -O3" ICC_LIBS=/opt/intel/cce/10.1.012/lib IFC_LIBS=/opt/intel/fce/10.1.012/lib/ LDFLAGS="-L$ICC_LIBS -L$IFC_LIBS -L/usr/lib64"

Hi, I would like some extra information on the 'cgh' package in R. I noticed that there isn't much activity regarding this package on the R and BioC mailing list (I googled it). I started using this package and I have few questions: 1/ As I have a custom tiling like array @8um features resolution (affy), I have a lot of probes to work with. I'm assuming it is correct to