Hi Andrew, On 2 June 2010 at 02:08, Andrew Piskorski wrote: | Dirk, that reminds me. I DO build R myself from scratch, but it often
I'm curious -- Why? | ends up not using Atlas even though I told it "--with-blas". | | In particular, I just built R 2.11.1 on an x86-64 server running | Ubuntu 8.04.4 LTS (Hardy), and it doesn't want to use Atlas. This | machine has both these Atlas packages installed, although I'm not sure | what the 3gf stuff is: | | ii atlas3-base 3.6.0-20.6 Automatically Tuned Linear Algebra Software, | ii libatlas3gf-base 3.6.0-21.1ubuntu3 Automatically Tuned Linear Algebra Software, | | Below is my configure command and some of the relevant output. Am I | doing anything obviously wrong? Or could this be some sort of | limitation of the older Atlas packages on this machine? Is R deciding | not to use Atlas because of the "checking whether double complex BLAS | can be used... no"? | | ------------------------------------------------------------ | | LIBnn=lib r_arch=x86_64 LIBS=-lpthread ../configure -with-x=yes --enable-R-shlib --enable-R-profiling --with-tcltk=/usr/lib/tcl8.4 --with-tcl-config=/usr/lib/tcl8.4/tclConfig.sh --enable-threads=posix --with-blas You could peek into my my obviously public configure call (by looking at debian/rules), I use --with-blas and --with-lapack and you differ in at least one. I have also in the past (see commented-out code) had to say --with-blase=SOMETHING for various values of something. As for the rest, I can only suggest the R Inst + Admin manual to you. You can also look into the code configure runs and try the tests by hand to see if the library supports them ornot. | checking build system type... x86_64-unknown-linux-gnu | checking host system type... x86_64-unknown-linux-gnu | | checking whether C99 double complex is compatible with Rcomplex... yes | yes | checking for cblas_cdotu_sub in vecLib framework... no | checking for dgemm_... no | checking for ATL_xerbla in -latlas... no | checking for dgemm_ in -lblas... yes | checking for dgemm_ in -ldgemm... no | checking for dgemm_ in -lblas... (cached) yes | checking for dgemm_ in -lessl... no | checking for dgemm_ in -lblas... (cached) yes | checking whether double complex BLAS can be used... no | | C compiler: gcc -std=gnu99 -g -O2 | Fortran 77 compiler: gfortran -g -O | C++ compiler: g++ -g -O2 | Fortran 90/95 compiler: gfortran -g -O | Obj-C compiler: | Interfaces supported: X11, tcltk | External libraries: readline No Blas. I get External libraries: readline, BLAS(generic), LAPACK(generic) indicating that we use the generic interface permitting the plug-in use. Hth, Dirk | Additional capabilities: PNG, JPEG, TIFF, NLS, cairo | Options enabled: shared R library, shared BLAS, R profiling, Java | Recommended packages: yes | | -- | Andrew Piskorski <[email protected]> | http://www.piskorski.com/ | | _______________________________________________ | R-SIG-Debian mailing list | [email protected] | https://stat.ethz.ch/mailman/listinfo/r-sig-debian -- Regards, Dirk _______________________________________________ R-SIG-Debian mailing list [email protected] https://stat.ethz.ch/mailman/listinfo/r-sig-debian
