On 3/18/21 3:53 AM, Ben Bolker wrote:
Thanks. I know it's supposed to Just Work (and I definitely
appreciate all the work that's gone into making it Just Work 99% of
the time!).
I tried --with-lapack, no joy.
Will try to decipher the rules file tomorrow ...
This is documented in R Admin manual, section A.3, and there is also
"configure --help".
On my Ubuntu 20.04, using "--with-blas --with-lapack" when a BLAS/LAPACK
implementation is installed via "apt" works for me:
with libblas3, liblapack3 I get in R via sessionInfo()
BLAS: /usr/lib/x86_64-linux-gnu/blas/libblas.so.3.9.0
LAPACK: /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3.9.0
then I install libopenblas0 and get, after re-starting R (not rebuilding):
BLAS: /usr/lib/x86_64-linux-gnu/openblas-pthread/libblas.so.3
LAPACK: /usr/lib/x86_64-linux-gnu/openblas-pthread/liblapack.so.3
Best
Tomas
cheers
Ben
On 3/17/21 10:25 PM, Dirk Eddelbuettel wrote:
Ben,
This stuff has worked unchanged since the 1990s when we had a
_really_ far
sighted fellow in Debian come up with the 'switch the links' scheme
which was
(and is) subsequently deployed by many numerical applications within
Debian,
R and e.g. Octave included.
And I used this ability to switch over a decade ago in a
never-quite-finished
paper which resulted in a package as well as a vignette as paper
draft on
CRAN: gcbd [1] It used the ability to switch between implementation
to time
and compare and benchmark the various BLAS and LAPACK libraries --
which was
then motivated by a comparison with GPUs. (The actual code / package is
stale-ish as some of the underlying packages have gone as eg the GPU
one --
but the mechanics you are after still work the exact same way on
Debian and
derivarives including Ubuntu and PopOS.)
(As a complete aside, the state of the art here is now one level up in
libraries based on flame/blis (a riff on blas) which can do a similar
logical
switch _at runtime_ (rather than by flipping softlinks and restarting
the
app). Julia and some other languages uses that, I think Fedora may
have it in
its R build as well. Inaki may know more...)
That said, from the top of my head, I think you error may just be
with the
second R compilation -- I always (i.e. for the Debian package) use both
--with-blas --with-lapack
and not just --with-blas. And I do there is public: if you know where
to look
you can see the exact invocation of the Debian build of the R package
(which
Ubuntu and Pop and ... then shadow) [2]
Hth, Dirk
[1] https://cran.r-project.org/package=gcbd
[2] https://sources.debian.org/src/r-base/4.0.4-1/debian/rules/
(and I apologise for how messy this still is)
______________________________________________
R-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/r-devel
______________________________________________
R-devel@r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/r-devel
