Hello. I am a Linux neophyte and know almost nothing about compiling, so I would appreciate any help and advice y'all would care to offer.
I am trying to compile the 64 bit version of R using a tuned ATLAS and LAPACK (ATLAS 3.9.24). I am running Ubunto 10.04 LTS (through wubi, FWIW). The ATLAS and LAPACK files (atlas.so, f77blas.so, lapack.so, and cblas.so) are sitting in the folder "/usr/local/atlas/lib" (together with the static .a versions and some other files. Following the R installation manual, I used the following configure string: ./configure --enable-R-shlib --enable-BLAS-shlib --with-blas="-L/usr/local/atlas/lib -latlas -lf77blas" --with-lapack="-L/usr/local/atlas/lib -llapack -lcblas" CFLAGS='-O3 -pipe -march=native' CXXFLAGS='-O3 -pipe -march=native' R_PAPERSIZE='letter' The configuration routine returns the following errors: checking for cblas_cdotu_sub in vecLib framework... no checking for dgemm_ in -L/usr/local/atlas/lib -latlas -lf77blas... no checking for dgemm_... no checking for ATL_xerbla in -latlas... no checking for dgemm_ in -lblas... no checking for dgemm_ in -lblas... (cached) no checking for dgemm_ in -lblas... (cached) no Looking at the config.log shows the following: configure:28566: checking for dgemm_ in -L/usr/local/atlas/lib -latlas -lf77blas configure:28587: gcc -std=gnu99 -o conftest -O3 -pipe -march=native -fpic -I/usr/local/include -L/usr/local/lib64 conftest.c -L/usr/local/atlas/lib -latlas -lf77blas -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 If I run "make" after this, R starts compiling and uses its own built-in blas and lapack I tried various different flavors of the configuration line including using BLAS_LIBS and LAPACK_LIBS to pass the folder and libraries, and nothing seems to work. I do not know enough to know if the problem with my ATLAS libraries or if the problem with my attempt at compiling R. If it makes a difference, the ATLAS (3.9.24) needed to be compiled with the --allow-multiple-definitions (-z multidef) option because of what may be a bug (see <http://sourceforge.net/tracker/?func=detail&aid=2998779&group_id=23725&atid=379483> ) I do not know if I could follow the "Shared BLAS" route suggested for ACML/Goto, as ATLAS requires two files (the f77blas library as well). Also, I would like to use the tuned lapack. I would very much appreciate any and everyones advice, as I have no idea how to proceed. Thank you, --Avraham _______________________________________________ R-SIG-Debian mailing list R-SIG-Debian@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-debian