[R-SIG-Mac] Fw: [R] MacPorts install of data.table lacks openmp support

[Naresh Gurbuxani]

I have been unable to install data.table with openmp support.  Following Ivan's suggestion, I checked this:

~ $ R CMD config CC
/opt/local/bin/clang-mp-18

Has anyone installed data.table with openmp support for this compiler?

On my Intel mac mini with 15.3.2 Sequoia, I followed the instructions given at https://mac.r-project.org.  It seems that enabling openmp support via MacPorts install needs a different method.  Here is what I have done:


Installed gfortran 14.2 using package available at https://mac.r-project.org.  
Installed openmp support (17.0.6) using
package available at https://mac.r-project.org/openmp/.  
liblzma, pcre2,
and bzip2 were installed by MacPorts. 

I do not have a Makevars file.
Without Makevars file, in the past I had successfully installed

data.table with openmp support.  



Thanks,

Naresh



~ $ which gfortran

/usr/local/bin/gfortran

~ $ gfortran --version

GNU Fortran (GCC) 14.2.0

~ $ clang --version

Apple clang version 16.0.0 (clang-1600.0.26.6)

Target: x86_64-apple-darwin24.3.0

Thread model: posix

InstalledDir: /Library/Developer/CommandLineTools/usr/bin

~ $ which clang

/usr/bin/clang

~ $ ls /usr/local/lib/libomp.dylib

/usr/local/lib/libomp.dylib

~ $ ls /usr/local/include/omp-tools.h

/usr/local/include/omp-tools.h

~ $ ls /usr/local/include/omp.h

/usr/local/include/omp.h

~ $ ls /usr/local/include/ompt.h

/usr/local/include/ompt.h

~ $ port installed xz*

The following ports are currently installed:

  xz @5.6.4_0 (active)

  xz-bootstrap @5.6.4_0 (active)

~ $ port installed pcre2 bzip2

The following ports are currently installed:

  bzip2 @1.0.8_0 (active)

  pcre2 @10.45_0 (active)

~ $ export $LDFLAGS

declare -x CLICOLOR="1"

declare -x COLUMNS="92"

declare -x DISPLAY="Macmini.fios-router.home"

declare -x EDITOR="/Applications/MacPorts/Emacs.app/Contents/MacOS/Emacs"

declare -x EMAIL="naresh_gurbuxani using hotmail.com"

declare -x HOME="/Users/nareshgurbuxani"

declare -x INFOPATH=":/usr/local/texlive/2024/texmf-dist/doc/info"

declare -x INSIDE_EMACS="29.4,comint"

declare -x LANG="en_US.UTF-8"

declare -x LOGNAME="nareshgurbuxani"

declare -x LSCOLORS="GxFxCxDxBxegedabagaced"

declare -x MANPATH=":/usr/local/texlive/2024/texmf-dist/doc/man"

declare -x NAME="Naresh Gurbuxani"

declare -x OLDPWD

declare -x 
PATH="/usr/local/texlive/2024/bin/universal-darwin:/opt/local/libexec/gnubin:/opt/local/bin:/opt/local/sbin:/usr/local/bin:/System/Cryptexes/App/usr/bin:/usr/bin:/bin:/usr/sbin:/sbin:/var/run/com.apple.security.cryptexd/codex.system/bootstrap/usr/local/bin:/var/run/com.apple.security.cryptexd/codex.system/bootstrap/usr/bin:/var/run/com.apple.security.cryptexd/codex.system/bootstrap/usr/appleinternal/bin:/usr/local/texlive/2024/bin/universal-darwin"

declare -x PS1="\\W \$ "

declare -x PWD="/Users/nareshgurbuxani"

declare -x SHELL="/bin/bash"

declare -x SHLVL="2"

declare -x SSH_AUTH_SOCK="/private/tmp/com.apple.launchd.Wok8stg6Ex/Listeners"

declare -x TERM="dumb"

declare -x TERMCAP=""

declare -x TERM_PROGRAM="Apple_Terminal"

declare -x TERM_PROGRAM_VERSION="455"

declare -x TERM_SESSION_ID="32510F68-CEC8-48D1-9C02-4A8B7B6F18D2"

declare -x TMPDIR="/var/folders/nb/2vppcjgd19l_h9brvzgdjcm40000gn/T/"

declare -x USER="nareshgurbuxani"

declare -x XPC_FLAGS="0x0"

declare -x XPC_SERVICE_NAME="0"

declare -x __CFBundleIdentifier="com.apple.Terminal"

declare -x __CF_USER_TEXT_ENCODING="0x1F5:0x0:0x0"

~ $ xcode-select --version

xcode-select version 2409.

~ $ port installed R

The following ports are currently installed:

  R @4.4.3_0+aqua+builtin_lapack+cairo+gcc14+openmp+tcltk+x11 (active)

~ $ Rscript -e 'sessionInfo()'

R version 4.4.3 (2025-02-28)

Platform: x86_64-apple-darwin24.3.0

Running under: macOS Sequoia 15.3.2



Matrix products: default

BLAS:   /opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/lib/libRblas.dylib

LAPACK: /opt/local/Library/Frameworks/R.framework/Versions/4.4/Resources/lib/libRlapack.dylib;  LAPACK version 3.12.0



locale:

[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8



time zone: America/New_York

tzcode source: internal



attached base packages:

[1] stats     graphics  grDevices utils     datasets  methods   base    



loaded via a namespace (and not attached):

[1] compiler_4.4.3

~ $


________________________________________
From: Ivan Krylov <ikrylov using disroot.org>
Sent: Monday, March 17, 2025 5:37 AM
To: Naresh Gurbuxani <naresh_gurbuxani using hotmail.com>
Cc: r-help using r-project.org <r-help using r-project.org>
Subject: Re: [R] MacPorts install of data.table lacks openmp support
 
Hello Naresh,

If you don't get a good answer here, consider asking later at
R-SIG-Mac using R-project.org.

В Sun, 16 Mar 2025 20:28:49 +0000
Naresh Gurbuxani <naresh_gurbuxani using hotmail.com> пишет:

> I installed gfortran 14.2 using package available at
> https://mac.r-project.org.  Then I installed openmp support (17.0.6)
> using package available at https://mac.r-project.org/openmp/.

These are needed to build source packages for the CRAN build of R using
the Apple toolchain. Although if you install the CRAN build of R, it
should be possible to install the pre-built packages, including
data.table, with OpenMP support. (CRAN builds of R for macOS include
their own copy of OpenMP runtime starting with R-4.3.)

> ~ $ which gfortran
> /usr/local/bin/gfortran
> ~ $ gfortran --version
> GNU Fortran (GCC) 14.2.0
> ~ $ clang --version
> Apple clang version 16.0.0 (clang-1600.0.26.6)
> Target: x86_64-apple-darwin24.3.0
> Thread model: posix
> InstalledDir: /Library/Developer/CommandLineTools/usr/bin

Doesn't the MacPorts build of R use its own toolchain?
https://github.com/macports/macports-ports/blob/bc07a46df685778bc33530c2dd09050be07a6a41/math/R/Portfile#L40-L41

Check the output of R CMD config CC (is it /opt/local/bin/clang-mp-18?)
and try to find out how to enable OpenMP support for that compiler.
Does it need a separate installation of the libomp port?

--
Best regards,
Ivan