Package Details: r-mkl 4.4.2-1

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
Submitter: giniu
Maintainer: alexanderp
Last Packager: alexanderp
Votes: 25
Popularity: 0.000084
First Submitted: 2010-05-06 00:10 (UTC)
Last Updated: 2024-11-12 19:56 (UTC)

Latest Comments

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alexanderp commented on 2018-03-28 13:01 (UTC) (edited on 2018-03-28 13:06 (UTC) by alexanderp)

@mys_721tx, it must be due to a missing dependency from Intel Parallel Studio. I'll have another look. Just to clarify, you're getting the hangup during checking, not building, right?

mys_721tx commented on 2018-03-28 00:33 (UTC)

So I enabled icc and was hang on "Running ‘Simple.R’" when building Matrix. I have openmp and ice installed. It seems to be the same problem as the one jbmorgado had. What kind of log should I provide?

alexanderp commented on 2018-03-27 22:51 (UTC) (edited on 2018-03-29 01:43 (UTC) by alexanderp)

Thanks for the reports. The Matrix hangup issue when using gcc is fixed as of 3.4.4-2.

Version 3.4.4-3 fixes compilation with icc as well.

Please note that there's a bug in intel-tbb_psxe. Specifically, /etc/ld.so.conf.d/intel-tbb.conf should contain /opt/intel/composerxe/linux/tbb/lib/intel64/gcc4.7

japhir commented on 2018-03-22 12:00 (UTC)

I have the same errors as nessuno. I htop to see what's causing the hang-up after waiting for a reasonable time, and then F9 sigterm the offending process. They are the same as he listed, plus a checking of vignette output thing that keeps hanging. It now succesfully builds, but somehow when I run a function from a package that falls back to fortran code, it causes a segfault :(.

nessuno commented on 2018-03-17 20:33 (UTC) (edited on 2018-03-17 20:35 (UTC) by nessuno)

I hope to be helpful, even though I'm not a so expert user.

I have the same error of @pat-s. I think that the problem is at row 1031 of Simple.R. It uses checkMatrix that requires to convert the sparse matrix in a "simple" matrix, but for the matrix named "S.na" it gives me

Error in as(S.na, "martix") : 
  no method or default for coercing “dgCMatrix” to “martix”

Enter a frame number, or 0 to exit   

1: as(S.na, "martix")

Selection: as(S.na, "matrix")
Enter an item from the menu, or 0 to exit

But it gives me errors also in other three files

  • Comparisons.Rnw
  • sparseModels.Rnw
  • mgcv-parallel.R

but I didn't understand precisely where by the moment.

Said that, if I skip them, by killing the R process each time (I don't how to do it in a cleaner way), it compiles and everithing seems to work then. But I don't know if it's ok or not.

Hoping it can help, let me know if I can do something else.

pat-s commented on 2018-03-17 11:39 (UTC)

Here's a gist: https://gist.github.com/pat-s/09029269cf02a8e5642a0f81dcf77cd6

Idk which additional information you would need. Just tell me :)

As said, this happens with the standard PKGBUILD and gcc v7.3

alexanderp commented on 2018-03-16 20:11 (UTC)

Updated to 3.4.4

@jbmorgado and @pat-s: I cannot reproduce the Simple.R issue on my machine when compiling with gcc. Only when compiling with icc

Can you send a log file with more information?

pat-s commented on 2018-03-11 22:46 (UTC)

I was able to get it building by commenting out the "check" section of the PKGBUILD:

check() { cd R-${pkgver} make check-recommended }

pat-s commented on 2018-03-11 22:40 (UTC)

@alexanderp I am also stuck at the same issue as @jbmorgado. Its stuck running the test script of the "Matrix" package called "Simple.R". Building with gcc. Its the default anyways in the current PKGBUILD.

alexanderp commented on 2018-02-17 10:47 (UTC)

@jbmorgado, make sure you're compiling with gcc and not with icc, i.e. the _CC="icc" line should be commented out. Unfortunately, R seems to be incompatible with recent releases of the Intel compilers.

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