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Package Details: r-mkl 4.0.5-1

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Git Clone URL:	https://aur.archlinux.org/r-mkl.git (read-only, click to copy)
Package Base:	r-mkl
Description:	Language and environment for statistical computing and graphics, linked to the Intel(R) MKL.
Upstream URL:	http://www.r-project.org/
Keywords:	hpc mathematics modelling r statistics
Licenses:	GPL
Conflicts:	microsoft-r-open, r
Provides:	r=4.0.5
Submitter:	giniu
Maintainer:	alexanderp
Last Packager:	alexanderp
Votes:	21
Popularity:	0.143779
First Submitted:	2010-05-06 00:10
Last Updated:	2021-04-07 14:53

Dependencies (25)

bzip2 (bzip2-git, bzip2-rustify-git, bzip2-with-lbzip2-symlinks)
curl (curl-git, curl-minimal-git)
icu (icu-git-static, icu-git)
intel-mkl
libjpeg (mozjpeg-git, libjpeg-turbo-git, libjpeg-turbo-minimal-git, mozjpeg, libjpeg-turbo)
libpng (libpng-apng, libpng-minimal-git, libpng-git)
libtiff (libtiff-git, libtiff-minimal-git)
libxmu
libxt
ncurses (ncurses-nohex, ncurses-git)
openmp (openmp-svn, openmp-nvptx, llvm-toolchain-nightly-bin, openmp-rc, openmp-stable)
pango (pango-ubuntu, pango-minimal-git, pango-git)
pcre2 (pcre2-svn)
perl (perl-git)
readline (readline-athame-git, readline-git)
unzip (unzip-natspec, unzip-iconv)
xz (xz-git, xz-static-git)
zip (zip-natspec)
zlib (zlib-static, zlib-git, zlib-asm, minizip-asm, zlib-ng-git, zlib-ng)
gcc-fortran (gcc-fortran-multilib-x32, gcc-fortran-multilib-git, gcc-fortran-git, gcc-fortran-11) (make)
java-environment (jdk5, tuxjdk, jdk7-openjdk-infinality, java-8-openjdk-shenandoah, jdk8-openjdk-infinality, java-gcj-compat, jdk9, zulu-10-bin, jdk-devel, jdk8-arm64, jdk6, jdk12-openj9-bin, zulu-12-bin, jdk12, jdk8-openjdk-dcevm, jdk11-graalvm-ee-bin, jdk8-arm, jdk13-openj9-bin, jdk9-openj9-bin, jdk10, jdk11-openjdk-dcevm, jdk8-openjdk-jetbrains, jdk8-openjdk-shenandoah, jdk10-openj9-bin, jdk14-openj9-bin, jdk7, jdk8-jetbrains, jdk7r1-j9-bin, jdk7-j9-bin, zulu-14-bin, zulu-13-bin, jdk-bcl, amazon-corretto-15, jdk11-openj9-bin, jdk11-openjdk-dcevm-conflicts-fixed, jdk8-j9-bin, jdk8-openj9-bin, zulu-embedded-jdk8, sapmachine-jdk-bin, jdk11-jetbrains-imfix, jdk15-adoptopenjdk, jdk-openj9, zulu-embedded-jdk, jdk16-graalvm-bin, zulu-8-bin, zulu-11-bin, jre-jetbrains, jdk-jetbrains, jdk-arm, jdk8-graalvm-bin, jdk11-graalvm-bin, liberica-jdk-8-full-bin, liberica-jdk-11-bin, liberica-jdk-11-full-bin, liberica-jdk-11-lite-bin, liberica-jdk-full-bin, liberica-jre-11-bin, liberica-jre-11-full-bin, amazon-corretto-16, jdk-openj9-bin, jdk, amazon-corretto-8, amazon-corretto-11, jdk11-msopenjdk-bin, liberica-jre-8-full-bin, zulu-embedded-jdk11, jdk8-adoptopenjdk, jdk-adoptopenjdk, jdk11-adoptopenjdk, zulu-16-bin, java-openjdk-ea-bin, zulu-15-bin, jdk8, jdk11, java-openjdk-loom-ea-bin, java-openjdk-bin, jdk-openjdk, jdk11-openjdk, jdk7-openjdk, jdk8-openjdk) (make)
tk (tk85) (make)
gcc-fortran (gcc-fortran-multilib-x32, gcc-fortran-multilib-git, gcc-fortran-git, gcc-fortran-11) (optional) – needed to compile some CRAN packages
texlive-bin (texlive-bin-svn, texlive-full, texlive-installer, texlive-upstream) (optional) – LaTeX sty files
tk (tk85) (optional) – tcl-tk interface

Required by (390)

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Sources (5)

Latest Comments

1 2 3 4 5 6 ... Next › Last »

sgrubsmyon commented on 2021-05-05 14:40

@Humble_Panda Yes, indeed. Removing and reinstalling (recompiling) the r-mkl package helped in my case.

Humble_Panda commented on 2021-02-08 08:27

Anyone else getting a broken R installation after one of the last updates? libicuuc.so.67 isn't on the system anymore...

alexanderp commented on 2021-01-20 14:22

@LuisDamiano, in my opinion, distributing a binary of this package defeats the purpose of the additional CPU performance optimizations obtained by compiling on a target system.

Svenstaro commented on 2021-01-19 08:09

@LuisDamiano you could talk to the maintainers of the r package whether they'd be interested in pulling this in.

LuisDamiano commented on 2021-01-18 16:44

Thanks for the great work! It takes quite a bit to compile locally, would it be possible to get r-mkl added to the Extra official repo? Having the binaries would be quite useful.

k07k454n commented on 2020-11-24 18:30

Had issues for 4.0.2 and 4.0.3 like this during build:

Error: package or namespace load failed for ‘nnet’ in dyn.load(file, DLLpath = DLLpath, ...):                                                                                                                                                                                     
 unable to load shared object '/home/user/aur/r-mkl/src/R-4.0.3/library/nnet/libs/nnet.so':                                                                                                                                                                                       
  /home/user/aur/r-mkl/src/R-4.0.3/library/nnet/libs/nnet.so: undefined symbol: _ZGVbN2v_exp                                                                                                                                                                                      
Error: loading failed 
** testing if installed package can be loaded                                                                                            
Error: package or namespace load failed for ‘MASS’ in dyn.load(file, DLLpath = DLLpath, ...):                                                      
 unable to load shared object '/home/user/aur/r-mkl/src/R-4.0.3/library/MASS/libs/MASS.so':                                                        
  /home/user/aur/r-mkl/src/R-4.0.3/library/MASS/libs/MASS.so: undefined symbol: _ZGVbN2v_log                                                       
Error: loading failed

..so to build and install successfully had to first do 'export SHLIB_LDFLAGS=-lmvec' before makepkg

alexanderp commented on 2020-08-24 19:12

@jalapeno, if intel-mkl was updated, try recompiling the package.

jalapeno commented on 2020-08-20 19:55

When attempting to install a package in r-mkl, I get this error:

install.packages("mnormt")
[truncated]
/usr/bin/ld: cannot find -lmkl_gf_lp64
/usr/bin/ld: cannot find -lmkl_gnu_thread
/usr/bin/ld: cannot find -lmkl_core
collect2: error: ld returned 1 exit status
make: *** [/usr/share/R//make/shlib.mk:6: tmvnsim.so] Error 1
ERROR: compilation failed for package ‘tmvnsim’

I was unable to find a solution here, but managed to just copy lmkl_gf_lp64.so lmkl_gf_thread and lmkl_core.so' from/opt/intel/mkl/lib/intel64to/usr/lib/R/lib`.

Is there some other way that this ought to be done? Or, is this the only work-around?

tealeaf commented on 2020-07-26 19:51

As a follow-up to my previous comment: downgrading to intel-mkl-2020.1.217-6 resolved this for the moment.

tealeaf commented on 2020-07-26 15:28

Not sure if this belongs here, in intel-mkl, or elsewhere, but I'm having a problem running R-INLA under this on a new machine. I can install with:

install.packages("INLA", repos=c(getOption("repos"), INLA="https://inla.r-inla-download.org/R/testing"), dep=TRUE)

as normal, but running:

library(INLA)
inla.pardiso.check()

I get:

/home/joss/.R/packages/INLA/bin/linux/64bit/inla: symbol lookup error: /opt/intel/mkl/lib/intel64/libmkl_gf_lp64.so: undefined symbol: mkl_lapack_scombssq
Error in system(paste(shQuote(inla.call.no.remote()), "-m pardiso"), intern = TRUE) : error in running command

The strange thing is that this is working on my old machine with an almost identical setup.

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