>>>>> "PD" == Peter Dalgaard <[EMAIL PROTECTED]>
>>>>> on 26 Feb 2004 15:44:16 +0100 writes:
PD> Douglas Bates <[EMAIL PROTECTED]> writes:
>> Have you tried configuring R with Goto's BLAS
>> http://www.cs.utexas.edu/users/kgoto/
>>
>> I haven't worked with Opteron or Athlon64 computers but I understand
>> that Goto's BLAS are very effective on those machines. Furthermore
>> Goto's BLAS are (only) available as .so libraries so you don't need to
>> mess with creating the .so version.
PD> I tried it, yes. Somewhat to my surprise, it seemed to be not quite as
PD> fast as the threaded ATLAS, but I wasn't very systematic about the
PD> benchmarking.
PD> (and the Goto items have license issues, which get in the way for
PD> binary distributions.)
Thanks a lot, Peter, Brian, Doug, for your feedbacks!
In the mean time, I have three running versions of R(-devel) on
the 64-Opteron
- "plain"
- linked against threaded GOTO
- linked against threaded (static) ATLAS (using -fPIC for compilation;
"large" Rlapack)
and I find that GOTO is faster than ATLAS
consistently (between ~ 5-20%) for several tests
(square matrices; %*% and solve).
ATLAS is still an order of magnitude faster than "plain" for
3000x3000 matrices.
Here are somewhat repeatable "ATLAS for R" build instructions:
1. get ATLAS source; unpack
2. make : use defaults and "express" installation
3. Before "make install ...", edit the Make.<ARCHITECTURE> file:
add "-fPIC" to three places, namely F77FLAGS, CCFLAG0, and MMFLAGS:
which in case of the "threaded Opteron" architecture, leads to
the three new lines
F77FLAGS = -fPIC -fomit-frame-pointer -O -m64
CCFLAG0 = -fPIC -fomit-frame-pointer -O -mfpmath=387 -m64
MMFLAGS = -fPIC -fomit-frame-pointer -O -mfpmath=387 -m64
in the file Make.Linux_HAMMER64SSE2_2
4. make install arch=Linux_HAMMER64SSE2_2
5. Sym.link the ATLAS libraries into /usr/local/lib:
cd /usr/local/lib
ln -s <ATLAS_build_dir>/lib/Linux_HAMMER64SSE2_2/lib* .
6. (needed for runtime!):
Use environment variable LD_LIBRARY_PATH=/usr/local/lib
Note that I haven't built *.so (shared) libraries yet.
Martin Maechler <[EMAIL PROTECTED]> http://stat.ethz.ch/~maechler/
Seminar fuer Statistik, ETH-Zentrum LEO C16 Leonhardstr. 27
ETH (Federal Inst. Technology) 8092 Zurich SWITZERLAND
phone: x-41-1-632-3408 fax: ...-1228 <><
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