Dirk,

Thanks for the helpful reply. I agree with the concept of testing an app
that is commonly used. I suppose someone who uses R to interface alot with a
database could have a very differnt experience that one who uses it mostly
for matrix manupulations.

Still, as a scientist I like to have some empirical evidence as to why I am
doing  something, especially when it entails the extra headache of using a
compiler wiith which I am not familiar. As a non-computer-scientist,
however, I I wasn't sure the best way about finding the answer.

Mark

On Tue, Jun 3, 2008 at 11:16 AM, Dirk Eddelbuettel <edd@debian.org> wrote:

> On Tue, Jun 03, 2008 at 11:09:28AM -0400, Mark Kimpel wrote:
> > Dirk,
> >
> > At the moment, our emphasis is getting an installation that will run Rmpi
> in
> > batch mode. I imagine my sysadmin put that line in to minimize potential
> > problems. To be honest, I didn't catch it, I was just glad to get a
> compile
> > :)
> >
> > As to the line that doesn't apply to the R install, I think you are
> > referring to the "with mpi", which I think he also slipped in not
> realizing
> > it should more properly go with the Rmpi install.
>
> Right. I wasn't implying it would do harm.
>
> As for the x11 choice: I prefer to keep the change vectors
> minimal. Otherwise you go nuts trying to debug things.
>
> But it's good to see that you now understand that you have to start
> 'at the top' with Intel icc, and once you have a working R with you
> can start working towards packages.  It's like a port to a different
> platform as you completely switch the toolchain.
>
> Good luck and keep us posted. I have looking at icc on the TODO list
> too (for my C++ code, though, given R's interactive nature I think
> there are lower hanging fruits elsewhere...)
>
> Lastly, as to the benchmarking: It's difficult. Ripley once snarled
> that it is probably the application you want to run the most so
> there you go ...
>
> Dirk
>
> >
> > Mark
> >
> > On Tue, Jun 3, 2008 at 12:18 AM, Dirk Eddelbuettel <edd@debian.org>
> wrote:
> >
> > > On Mon, Jun 02, 2008 at 11:56:16PM -0400, Mark Kimpel wrote:
> > > > ../configure --prefix=/N/u/mkimpel/R_HOME/R-patched/R-build \
> > > > --with-system-zlib=/usr/lib64 --with-system-bzlib=/usr/lib64 \
> > > > --with-mpi=/N/soft/linux-rhel4-x86_64/openmpi/1.2.5/intel-64
> --with-tcltk
> > > \
> > >
> > > There is no such option for R's configure.
> > >
> > > >
> --with-tcl-config=/N/soft/linux-rhel4-x86_64/tcl8.4.16/lib64/tclConfig.sh
> > > \
> > > >
> --with-tk-config=/N/soft/linux-rhel4-x86_64/tk8.4.16/lib64/tkConfig.sh \
> > > > --without-x --without-readline --without-iconv \
> > >
> > > So you never want your compute cluster to be able to do an interactive
> > > plot under x11 ?
> > >
> > > Dirk
> > >
> > > --
> > > Three out of two people have difficulties with fractions.
> > >
> >
> >
> >
> > --
> > Mark W. Kimpel MD  ** Neuroinformatics ** Dept. of Psychiatry
> > Indiana University School of Medicine
> >
> > 15032 Hunter Court, Westfield, IN  46074
> >
> > (317) 490-5129 Work, & Mobile & VoiceMail
> > (317) 663-0513 Home (no voice mail please)
> >
> > ******************************************************************
>
> --
> Three out of two people have difficulties with fractions.
>



-- 
Mark W. Kimpel MD ** Neuroinformatics ** Dept. of Psychiatry
Indiana University School of Medicine

15032 Hunter Court, Westfield, IN 46074

(317) 490-5129 Work, & Mobile & VoiceMail
(317) 663-0513 Home (no voice mail please)

******************************************************************

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