On 29/09/2020 12:27, Kasper Daniel Hansen wrote:
To use veclib you need
--with-blas="-framework Accelerate"
Details are in the R-admin manual, including that R fails one of its checks.
Simon's calling this vecLib is a bit misleading. 'vecLib' was a
vectorized library for PPC Macs, and the name lives on for a small part
of the Accelerate framework. The part that supplies an enhanced BLAS is
different, and is based on ATLAS for x86_64 CPUs.
Incidentally, on the configuration issue -- had you followed the posting
guide and either read the current manual or tried R-patched you would
not have encountered the problem (which AFAWK is very recent, from the
Command Line Tools for Xcode 12, released only for rather recent
versions of Catalina and pre-Big Sur about 10 days ago). Now documented at
https://developer.apple.com/documentation/xcode-release-notes/xcode-12-release-notes
On Tue, Sep 29, 2020 at 9:53 AM roy <rollinfor...@gmail.com> wrote:
Hi Simon,
Thanks for the info. I was totally unaware of ABI, vecLib, etc and that
Apple has blas, lapack, etc. But after reading up on this and re-reading
your email, I'm beginning to understand more about this.
So, I would like to first checkout vecLib. From what you say, would I have
to do something like the following?
./configure --enable-BLAS-shlib --with-blas="-lBLAS" ...
Is this also possible with LAPACK?
tx again.
cheers, roy
On Mon, Sep 28, 2020 at 3:01 PM Simon Urbanek <simon.urba...@r-project.org
wrote:
Rollin,
it has been several years since I last tested MKL, so take it with a
grain
of salt, but in general you don't necessarily have to build R with MKL in
order to use it - you only need to use --enable-BLAS-shlib and link to
any
ABI-compatible BLAS which can be vecLib as well. Then you can change the
link from vecLib to MKL in the BLAS stub. Note that we only need the C
ABI,
there are wrappers vecLibg95f.* which re-map the F entry points to C
entry
points as to avoid Fortran ABI issues thus you don't care about the
Fortran. However, historically, MKL has not been much more performant
than
vecLib so it's unclear if it is worth the hassle. As with any accelerated
BLAS, note that this may have effects on results in R.
Cheers,
Simon
On 28/09/2020, at 7:07 PM, rollin <rollinfor...@gmail.com> wrote:
I wanted to build R from source on macos (10.15.5) so I could include
Intel's MKL. So I first looked at building R from source without MKL.
From the installation doc, I modified config.site to have the
following:
CC=clang
OBJC=$CC
FC=/usr/local/bin/gfortran
CXX=clang++
I then ran configuration via the command:
./configure -C --enable-R-shlib --enable-memory-profiling
--x-includes=/opt/X11/include --x-libraries=/opt/X11/lib
PKG_CONFIG_PATH=/opt/X11/lib/pkgconfig:/usr/local/lib/pkgconfig:/usr/lib/pkgconfig
And received the following information and error:
checking if bzip2 version >= 1.0.6... no
checking whether bzip2 support suffices... configure: error: bzip2
library
and headers are required
By looking at the log, I saw a compiler error due to an implicit
function.
I then made the following change in config.site:
CFLAGS='-Wno-implicit-function-declaration -g -O2''
And configure now ran without errors.
However, when I looked at configuring to use MKL, I discovered that MKL
on
macos does not support gnu fortran so, unless I purchase Intel's
Fortran
compiler, it looks like I'm sol.
Has anyone built R with MKL on macos (10.15)? In any event, I wanted
to
at
least note the issue and work around I encountered when building R on
macos with clang/xcode.
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Brian D. Ripley, rip...@stats.ox.ac.uk
Emeritus Professor of Applied Statistics, University of Oxford
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