[R-SIG-Mac] OpenMP on CRAN (Simon Urbanek)
Manuel Spínola
m@p|no|@10 @end|ng |rom gm@||@com
Fri May 1 21:29:26 CEST 2020
That will be a great idea. I don’t know much of programming and I get
confused with so many technical details.
Manuel Spínola
On Fri, May 1, 2020 at 10:32 Balamuta, James Joseph <balamut2 using illinois.edu>
wrote:
> Simon,
>
> Thank you for the official instructions on using OpenMP with R 4.0.0!
>
> Also, thanks for making the source behind mac.r-project.org available on
> GitHub!
> https://github.com/s-u/R-mac-dev
>
> Would you consider creating an organization to house all repositories
> related to R for macOS in a manner similar to R for Windows?
>
> e.g. https://github.com/r-windows
>
> Best,
>
> JJB
>
> On 4/30/20, 8:10 PM, "R-SIG-Mac on behalf of Simon Urbanek" <
> r-sig-mac-bounces using r-project.org on behalf of simon.urbanek using R-project.org>
> wrote:
>
> I have now created a page about this:
>
> http://mac.r-project.org/openmp
>
> which also provides libomp binaries for all recent versions of Xcode
> (and more).
>
> Important note: this is about Xcode - it is NOT about using Homebrew
> tools nor the custom compilers we used before R 4.0.0. Both of the latter
> are not suitable for use with R 4.0.0 binaries.
>
> Please give it a shot. Thanks for those participating in the
> discussion.
>
> Cheers,
> Simon
>
>
>
> > On 1/05/2020, at 2:23 AM, Wright, Erik Scott <ESWRIGHT using pitt.edu>
> wrote:
> >
> > Hi Kevin et al.,
> >
> > The setup you suggested did not work for me, but I was able to get
> OpenMP to work on Mac (10.13) with R v4.0 packages. Here's what I did:
> >
> > (1) After installing Homebrew, ran
> > brew install libomp
> > # Note it is also possible to install from OpenMP Source code:
> https://releases.llvm.org/download.html#10.0.0
> > (2) Determined the install path with
> > brew --prefix libomp
> > # In my case /usr/local/opt/libomp
> > (3) Added lines to ~/.R/Makevars
> > CC=/usr/local/clang4/bin/clang -fopenmp
> -I/usr/local/opt/libomp/include
> > LDFLAGS=-L/usr/local/opt/libomp/lib
> >
> > I imagine the process is similar for C++ code by setting CXX. Now
> parallelization for C code with OpenMP is working again on Mac.
> >
> > As always, I am thankful to the R community for helping problem
> solve.
> >
> > I wish more direction along these lines could be added to
> mac.r-project.org
> >
> > Erik
> >
> >
> >> On Apr 29, 2020, at 1:51 AM, Dmitriy Selivanov <
> selivanov.dmitriy using gmail.com> wrote:
> >>
> >> Thanks, Kevin, I can confirm suggested setup works fine so far.
> Thank you!
> >>
> >> I understand it, is that there's
> >> no guarantee that this will work properly (or continue to work
> >> properly) as the Apple toolchain continues to be updated -- e.g. a
> new
> >> version of macOS / Xcode could install a version of Apple Clang that
> >> is then incompatible with the version of libomp currently in use. In
> >> such a case, I suspect one would need to find and reinstall libomp.
> >>
> >> Thats understandable.
> >>
> >> On Sat, Apr 25, 2020 at 8:09 PM Kevin Ushey <kevinushey using gmail.com>
> wrote:
> >> The following works for me on macOS 10.15.4 using Apple Clang +
> libomp
> >> from LLVM 10 (via Homebrew).
> >>
> >> Install libomp from Homebrew with:
> >>
> >> brew install libomp
> >>
> >> Then, put the following in ~/.R/Makevars
> >>
> >> CPPFLAGS += -I/usr/local/opt/libomp/include -Xclang -fopenmp
> >> LDFLAGS += -L/usr/local/opt/libomp/lib -lomp
> >>
> >> Then R will automatically enable + use OpenMP as appropriate when
> >> installing packages from sources.
> >>
> >> The main danger of this approach, as I understand it, is that
> there's
> >> no guarantee that this will work properly (or continue to work
> >> properly) as the Apple toolchain continues to be updated -- e.g. a
> new
> >> version of macOS / Xcode could install a version of Apple Clang that
> >> is then incompatible with the version of libomp currently in use. In
> >> such a case, I suspect one would need to find and reinstall libomp.
> >>
> >> In theory, this could be alleviated by ensuring all users download
> and
> >> use the same version of Xcode as is being used by the macOS build
> >> machine (Xcode 10.1), but in practice users will likely just be
> using
> >> the "default" set of command line tools that comes with their
> version
> >> of macOS.
> >>
> >> Cunningham's law will hopefully ensure someone else will chime in if
> >> I've got something wrong :-)
> >>
> >> Best,
> >> Kevin
> >>
> >> On Sat, Apr 25, 2020 at 8:29 AM Wright, Erik Scott <
> ESWRIGHT using pitt.edu> wrote:
> >> >
> >> > I second this request. Dropping OpenMP support in R v4.0 on Mac
> is unfortunate. My R package is highly parallelized via OpenMP, and many
> of my end-users take advantage of the excellent speedups. It would be much
> appreciated if user-level instructions could be provided for how to enable
> OpenMP support on the Mac.
> >> >
> >> > Thanks,
> >> > Erik
> >> >
> >> >
> >> > > On Apr 23, 2020, at 7:08 AM, Dmitriy Selivanov <
> selivanov.dmitriy using gmail.com> wrote:
> >> > >
> >> > > Hi Simon,
> >> > >
> >> > > Just wanted follow up on this topic.
> >> > >
> >> > > It would be very helpful if you can provide some guide on
> >> > >
> https://nam05.safelinks.protection.outlook.com/?url=https%3A%2F%2Fmac.r-project.org%2F&data=02%7C01%7Ceswright%40pitt.edu%7C65097590dea4453ab8cf08d7e776b868%7C9ef9f489e0a04eeb87cc3a526112fd0d%7C1%7C0%7C637232369415901734&sdata=qlhXuEubgD6PNmkbD%2BWQy5OI9X%2BGjxSYHMNjA%2BQHZzI%3D&reserved=0
> <
> https://nam05.safelinks.protection.outlook.com/?url=https%3A%2F%2Fmac.r-project.org%2F&data=02%7C01%7Ceswright%40pitt.edu%7C65097590dea4453ab8cf08d7e776b868%7C9ef9f489e0a04eeb87cc3a526112fd0d%7C1%7C0%7C637232369415911728&sdata=5XR5LJuAKu4%2B3%2FUHsWVPMlyXTLY87P6OF%2FP%2FTZt1W8Y%3D&reserved=0>
> for those users
> >> > > (advanced?) and developers who wants to be able to use OpenMP
> on mac. From
> >> > > what I've understood from this mail thread the easiest way is
> to install R
> >> > > from homebrew as it is built with non-standard Apple toolchain.
> >> > > Apart from that you've mentioned you may consider to bundle
> binary iomp
> >> > > with R installation, but "it would be on the package author to
> make sure
> >> > > that the way the package operates is compatible with that
> binary". Could
> >> > > you please elaborate on that?
> >> > >
> >> > > I believe I'm not alone who would like to be able to use OpenMP
> on mac and
> >> > > "official" guidance would be very helpful.
> >> > >
> >> > > --
> >> > > Regards
> >> > > Dmitriy Selivanov
> >> > >
> >> > > [[alternative HTML version deleted]]
> >> > >
> >> > > _______________________________________________
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> >> > > R-SIG-Mac using r-project.org
> >> > >
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> >> >
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> >>
> >>
> >> --
> >> Regards
> >> Dmitriy Selivanov
> >
>
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--
*Manuel Spínola, Ph.D.*
Instituto Internacional en Conservación y Manejo de Vida Silvestre
Universidad Nacional
Apartado 1350-3000
Heredia
COSTA RICA
mspinola using una.cr <mspinola using una.ac.cr>
mspinola10 using gmail.com
Teléfono: (506) 8706 - 4662
Personal website: Lobito de río <https://sites.google.com/site/lobitoderio/>
Institutional website: ICOMVIS <http://www.icomvis.una.ac.cr/>
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