(Resent as plain text, sorry) Thank you.
I am doing it this way as I really do not know much about Linux, and I would not know how to re-compile Rblas and Rlapack with the ATLAS BLAS and tuned LAPACK after I install the precompiled packages through synaptic. This way, ostensibly, I should be compiling it from scratch so it should work. Also, this way, I can compile R itself with optimization and -march=native to squeeze out whatever speed I can from my machine. Any advice would be very much appreciated, and thank you for pointing me to the correct list. --Avi On Fri, May 14, 2010 at 9:00 AM, Douglas Bates <ba...@stat.wisc.edu> wrote: > > There is a Debian/Ubuntu specific list, r-sig-deb...@r-project.org, > which I am cc:'ing on this reply, that is a better location for this > discussion. > > It appears that you may be going about things the hard way. There are > Ubuntu packages for atlas and for R that can handle all of this for > you. Take a look at http://cran.r-project.org/bin/linux/ubuntu for > information on how to get started. It will probably be much easier to > install the pre-compiled packages first and worry about compilation > for customization later. > > On Thu, May 13, 2010 at 11:16 PM, Avraham Adler <avraham.ad...@gmail.com> > wrote: > > Hello. I know almost nothing about Linux, so I apologize if the answer to > > this is obvious. > > > > I am trying to compile R with ATLAS (successfully compiled 3.9.24 on Ubuntu > > 10.04 64 bit). I configured with: > > > > ./configure --enable-R-shlib --enable-BLAS-shlib > > --with-blas="-L/usr/local/atlas/lib -lf77blas -latlas" > > --with-lapack="-L/usr/local/atlaslib -llapack -lcblas" --with-x > > > > and I get this error (from config.log): > > > > configure:28566: checking for dgemm_ in -L/usr/local/atlas/lib -lf77blas > > -latlas > > configure:28587: gcc -std=gnu99 -o conftest -g -O2 -fpic > > -I/usr/local/include -L/usr/local/lib64 conftest.c -L/usr/local/atlas/lib > > -lf77blas -latlas -lgfortran -lm -ldl -lm >&5 > > conftest.c: In function 'main': > > conftest.c:193: warning: implicit declaration of function 'dgemm_' > > /usr/local/atlas/lib/libf77blas.so: undefined reference to > > `atl_f77wrap_zger2u_' > > /usr/local/atlas/lib/libf77blas.so: undefined reference to > > `atl_f77wrap_cger2c_' > > /usr/local/atlas/lib/libf77blas.so: undefined reference to > > `atl_f77wrap_zger2c_' > > /usr/local/atlas/lib/libf77blas.so: undefined reference to > > `atl_f77wrap_cger2u_' > > collect2: ld returned 1 exit status > > configure:28587: $? = 1 > > > > I found the following e-mail in the archives < > > http://www.mail-archive.com/r-devel@r-project.org/msg16853.html>, but it has > > a different error, and the suggestion of switching out the BLAS later does > > not seem to apply to ATLAS which requires two files, I think. > > > > Any advice would be very appreciated. > > > > Thank you. > > > > [[alternative HTML version deleted]] > > > > ______________________________________________ > > 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
