Technical information ++++++++++++++++++++++ $ python -c 'import sys;print sys.version' 2.4.2 (#1, Apr 13 2007, 16:14:04) [GCC 4.1.0 (SUSE Linux)] $ module load numpy/1.5.0 $ module list Currently Loaded Modulefiles: 1) icc/11.1.056 3) mkl/10.2.2 5) nose/0.11.2 7) numpy/1.5.0 2) ifort/11.1.056 4) fftw/3.2.2 6) SuiteSparse/3.4.0 $ python -c 'import numpy;print numpy.__version__' 1.5.0 $ uname -a Linux cn002 2.6.16.53-0.8_SFS2.3_0-default #1 SMP Mon Nov 5 14:15:47 CET 2007 ia64 ia64 ia64 GNU/Linux numpy-1.5.0 +++++++++++++++++ I have installed numpy-1.5.0 in our Itanium cluster. This is my site.cfg file: $ cat /opt/cesga/numpy-1.5.0/src_numpy-1.5.0/site.cfg [DEFAULT] library_dirs = /opt/cesga/fftw-3.2.2/lib:/opt/cesga/intel/intel11.0/Compiler/11.1/056/mkl/lib/64:/opt/cesga/SuiteSparse-3.4.0/lib include_dirs = /opt/cesga/fftw-3.2.2/include:/opt/cesga/intel/intel11.0/Compiler/11.1/056/mkl/include:/opt/cesga/SuiteSparse-3.4.0/include # UMFPACK # ------- [amd] amd_libs = amd [umfpack] umfpack_libs = umfpack # FFT libraries # ------------- [fftw] libraries = fftw3 # MKL # ---- [mkl] library_dirs = /opt/cesga/intel/intel11.0/Compiler/11.1/056/mkl/lib/64 lapack_libs = mkl_lapack mkl_libs = mkl_solver_lp64, mkl_intel_lp64, mkl_intel_thread, mkl_i2p, mkl_core These are the hacks: $ diff system_info.py.original system_info.py 818c818 < _lib_mkl = ['mkl','vml','guide'] ---

_lib_mkl = ['mkl','mkl_lapack','guide']

$ diff intelccompiler.py.original intelccompiler.py 28a29

cc_exe=cc_exe + ' -liomp5 -lpthread -fPIC'

scipy-0.8.0 +++++++++++++++ When I try to install scipy-0.8.0, the configuration process fails: $ tar zxvf scipy-0.8.0.tar.gz $ mv scipy-0.8.0 src $ cp -va run.sh src/ $ cd src/ $ cat run.sh #!/bin/bash module load numpy/1.5.0 python setup.py config_fc --fcompiler=intele #install --prefix=/sfs/home/cesga/mpan/scipy-0.8.0 $ ./run.sh Warning: No configuration returned, assuming unavailable.blas_opt_info: blas_mkl_info: FOUND: libraries = ['mkl_solver_lp64', 'mkl_intel_lp64', 'mkl_intel_thread', 'mkl_i2p', 'mkl_core', 'pthread'] library_dirs = ['/opt/cesga/intel/intel11.0/Compiler/11.1/056/mkl/lib/64'] define_macros = [('SCIPY_MKL_H', None)] include_dirs = ['/opt/cesga/fftw-3.2.2/include', '/opt/cesga/intel/intel11.0/Compiler/11.1/056/mkl/include', '/opt/cesga/SuiteSparse-3.4.0/include'] FOUND: libraries = ['mkl_solver_lp64', 'mkl_intel_lp64', 'mkl_intel_thread', 'mkl_i2p', 'mkl_core', 'pthread'] library_dirs = ['/opt/cesga/intel/intel11.0/Compiler/11.1/056/mkl/lib/64'] define_macros = [('SCIPY_MKL_H', None)] include_dirs = ['/opt/cesga/fftw-3.2.2/include', '/opt/cesga/intel/intel11.0/Compiler/11.1/056/mkl/include', '/opt/cesga/SuiteSparse-3.4.0/include'] lapack_opt_info: lapack_mkl_info: mkl_info: FOUND: libraries = ['mkl_solver_lp64', 'mkl_intel_lp64', 'mkl_intel_thread', 'mkl_i2p', 'mkl_core', 'pthread'] library_dirs = ['/opt/cesga/intel/intel11.0/Compiler/11.1/056/mkl/lib/64'] define_macros = [('SCIPY_MKL_H', None)] include_dirs = ['/opt/cesga/fftw-3.2.2/include', '/opt/cesga/intel/intel11.0/Compiler/11.1/056/mkl/include', '/opt/cesga/SuiteSparse-3.4.0/include'] FOUND: libraries = ['mkl_lapack', 'mkl_solver_lp64', 'mkl_intel_lp64', 'mkl_intel_thread', 'mkl_i2p', 'mkl_core', 'pthread'] library_dirs = ['/opt/cesga/intel/intel11.0/Compiler/11.1/056/mkl/lib/64'] define_macros = [('SCIPY_MKL_H', None)] include_dirs = ['/opt/cesga/fftw-3.2.2/include', '/opt/cesga/intel/intel11.0/Compiler/11.1/056/mkl/include', '/opt/cesga/SuiteSparse-3.4.0/include'] FOUND: libraries = ['mkl_lapack', 'mkl_solver_lp64', 'mkl_intel_lp64', 'mkl_intel_thread', 'mkl_i2p', 'mkl_core', 'pthread'] library_dirs = ['/opt/cesga/intel/intel11.0/Compiler/11.1/056/mkl/lib/64'] define_macros = [('SCIPY_MKL_H', None)] include_dirs = ['/opt/cesga/fftw-3.2.2/include', '/opt/cesga/intel/intel11.0/Compiler/11.1/056/mkl/include', '/opt/cesga/SuiteSparse-3.4.0/include'] umfpack_info: libraries umfpack not found in /opt/cesga/fftw-3.2.2/lib libraries umfpack not found in /opt/cesga/intel/intel11.0/Compiler/11.1/056/mkl/lib/64 amd_info: libraries amd not found in /opt/cesga/fftw-3.2.2/lib libraries amd not found in /opt/cesga/intel/intel11.0/Compiler/11.1/056/mkl/lib/64 FOUND: libraries = ['amd'] library_dirs = ['/opt/cesga/SuiteSparse-3.4.0/lib'] swig_opts = ['-I/opt/cesga/SuiteSparse-3.4.0/include'] define_macros = [('SCIPY_AMD_H', None)] include_dirs = ['/opt/cesga/SuiteSparse-3.4.0/include'] FOUND: libraries = ['umfpack', 'amd'] library_dirs = ['/opt/cesga/SuiteSparse-3.4.0/lib'] swig_opts = ['-I/opt/cesga/SuiteSparse-3.4.0/include', '- I/opt/cesga/SuiteSparse-3.4.0/include'] define_macros = [('SCIPY_UMFPACK_H', None), ('SCIPY_AMD_H', None)] include_dirs = ['/opt/cesga/SuiteSparse-3.4.0/include'] running config_fc unifing config_fc, config, build_clib, build_ext, build commands --fcompiler options the warning (first line) implies that BLAS primitives have to be recompiled. At the end the installation ends properly... this is not the point, but scipy doesn't use MKL BLAS primitives. BUT according to numpy... blas_mkl and blas_opt should be the same (like lapack_mkl and lapack_opt): $ module load numpy/1.5.0 $ python Python 2.4.2 (#1, Apr 13 2007, 16:14:04) [GCC 4.1.0 (SUSE Linux)] on linux2 Type "help", "copyright", "credits" or "license" for more information.

...

...

from numpy.distutils.system_info import get_info get_info('blas_mkl') {'libraries': ['mkl_solver_lp64', 'mkl_intel_lp64', 'mkl_intel_thread', 'mkl_i2p', 'mkl_core', 'pthread'], 'library_dirs': ['/opt/cesga/intel/intel11.0/Compiler/11.1/056/mkl/lib/64'], 'define_macros': [('SCIPY_MKL_H', None)], 'include_dirs': ['/opt/cesga/fftw-3.2.2/include', '/opt/cesga/intel/intel11.0/Compiler/11.1/056/mkl/include', '/opt/cesga/SuiteSparse-3.4.0/include']} get_info('blas_opt') {'libraries': ['mkl_solver_lp64', 'mkl_intel_lp64', 'mkl_intel_thread', 'mkl_i2p', 'mkl_core', 'pthread'], 'library_dirs': ['/opt/cesga/intel/intel11.0/Compiler/11.1/056/mkl/lib/64'], 'define_macros': [('SCIPY_MKL_H', None)], 'include_dirs': ['/opt/cesga/fftw-3.2.2/include', '/opt/cesga/intel/intel11.0/Compiler/11.1/056/mkl/include', '/opt/cesga/SuiteSparse-3.4.0/include']}

There is no need to recompile BLAS!!!! any idea or suggestion ? WHAT I'm doing wrong ? -- Atentamente, Miguel Pan Fidalgo (Applications Technician) mail: mpan at cesga.es web: http://www.cesga.es Avda. de Vigo s/n 15705, Santiago de Compostela Telf.: +34 981 569810 - Fax: 981 594616 -------------------------------------------------------------------------