From rpeng at jhsph.edu  Mon May 23 14:27:15 2005
From: rpeng at jhsph.edu (Roger D. Peng)
Date: Mon May 23 14:27:32 2005
Subject: [Rd] Best configure options for Data Mining
In-Reply-To: <1116833584.12645.30.camel@localhost.localdomain>
References: <1116833584.12645.30.camel@localhost.localdomain>
Message-ID: <4291CC23.4030104@jhsph.edu>

With the exception of the '--prefix' and the '--enable-linux-lfs' 
switches, the other switches are not necessary.  If you put the ATLAS 
BLAS libraries in a standard location (i.e. '/usr/local/lib') the 
configure script will find it automatically.

I'm not sure there's a set of 'configure' options that is 'optimal' for 
data mining.  I'm not even sure what that means.

-roger

Daniele Medri wrote:
> Dears,
> 
> I am selecting configure-options for Data Mining applications with R,
> notes that guide a user from SVN repository to system compilation on
> GNU/Linux system ("gcc" as compiler).
> 
> Status:
> 
> * My system specs:
> 	- processor Intel 2.8Ghz HT
> 	- kernel Linux 2.6.10-5-686-smp
> 	- ram 1500 Mbyte
> 
> * Dataset to use:
> 	- ~900 Mbyte of text file
> 
> * R from svn repository (daily updated)
> 
> * Installed libs:
> 	atlas3
> 	lapack3
> 
> * Configure options now:
> 
> ./configure --prefix=/usr  --with-blas  --with-lapack --enable-linux-lfs
> --with-zlib --with-bzlib --with-pcre --with-gnu-ld
> 
> Questions:
> 
> 1. after configure execution, I read that my compilation will be with
> lapack generic. Could I have a better option for that?
> 
> 2. any good option to add/remove from configure arguments?
> 
> 3. could I gain better result re-compiling the installed libs or kernel?
> If true, benchmarks justify the time spent?
> 
> 4. ways for benchmarking builds?
> 
> 
> Thanks for your gentle answers.
> 
> Cheers

-- 
Roger D. Peng
http://www.biostat.jhsph.edu/~rpeng/


[Rd] Best configure options for Data Mining
Roger D. Peng