[Numpy-discussion] Compiling against serial ATLAS

[Jared O'Connell]

Hello!

I am trying to build numpy 1.6.2 with python 2.7 in Ubuntu 12.04 and wish
to link against serial ATLAS rather than the threaded version.  I have
modified site.cfg accordingly by uncommenting out the following lines:

[blas_opt]
libraries = f77blas, cblas, atlas

[lapack_opt]
libraries = lapack, f77blas, cblas, atlas


However when I run python setup.py build it still links to the threaded
versions eg.

python setup.py build
Running from numpy source directory.F2PY Version 2
blas_opt_info:
blas_mkl_info:
  libraries mkl,vml,guide not found in /usr/local/lib
  libraries mkl,vml,guide not found in /usr/lib
  NOT AVAILABLE

atlas_blas_threads_info:
Setting PTATLAS=ATLAS
  libraries ptf77blas,ptcblas,atlas not found in /usr/local/lib
Setting PTATLAS=ATLAS
customize GnuFCompiler
Could not locate executable g77
Could not locate executable f77
customize IntelFCompiler
Could not locate executable ifort
Could not locate executable ifc
customize LaheyFCompiler
Could not locate executable lf95
customize PGroupFCompiler
Could not locate executable pgfortran
customize AbsoftFCompiler
Could not locate executable f90
customize NAGFCompiler
Found executable /usr/bin/f95
customize VastFCompiler
customize CompaqFCompiler
Could not locate executable fort
customize IntelItaniumFCompiler
Could not locate executable efort
Could not locate executable efc
customize IntelEM64TFCompiler
customize Gnu95FCompiler
Found executable /usr/bin/gfortran
customize Gnu95FCompiler
customize Gnu95FCompiler using config
compiling '_configtest.c':

/* This file is generated from numpy/distutils/system_info.py */
void ATL_buildinfo(void);
int main(void) {
  ATL_buildinfo();
  return 0;
}

C compiler: gcc -pthread -fno-strict-aliasing -DNDEBUG -g -fwrapv -O2 -Wall
-Wstrict-prototypes -fPIC

compile options: '-c'
gcc: _configtest.c
gcc -pthread _configtest.o -L/usr/lib/atlas-base -lptf77blas -lptcblas
-latlas -o _configtest
ATLAS version 3.8.4 built by buildd on Sat Sep 10 23:12:12 UTC 2011:
   UNAME    : Linux crested 2.6.24-29-server #1 SMP Wed Aug 10 15:58:57 UTC
2011 x86_64 x86_64 x86_64 GNU/Linux
   INSTFLG  : -1 0 -a 1
   ARCHDEFS : -DATL_OS_Linux -DATL_ARCH_HAMMER -DATL_CPUMHZ=1993
-DATL_USE64BITS -DATL_GAS_x8664
   F2CDEFS  : -DAdd_ -DF77_INTEGER=int -DStringSunStyle
   CACHEEDGE: 393216
   F77      : gfortran, version GNU Fortran (Ubuntu/Linaro 4.6.1-9ubuntu2)
4.6.1
   F77FLAGS : -fomit-frame-pointer -mfpmath=387 -O2 -falign-loops=4
-Wa,--noexecstack -fPIC -m64
   SMC      : gcc, version gcc (Ubuntu/Linaro 4.6.1-9ubuntu2) 4.6.1
   SMCFLAGS : -fomit-frame-pointer -mfpmath=387 -O2 -falign-loops=4
-Wa,--noexecstack -fPIC -m64
   SKC      : gcc, version gcc (Ubuntu/Linaro 4.6.1-9ubuntu2) 4.6.1
   SKCFLAGS : -fomit-frame-pointer -mfpmath=387 -O2 -falign-loops=4
-Wa,--noexecstack -fPIC -m64
success!
removing: _configtest.c _configtest.o _configtest
Setting PTATLAS=ATLAS
  FOUND:
    libraries = ['ptf77blas', 'ptcblas', 'atlas']
    library_dirs = ['/usr/lib/atlas-base']
    language = c
    define_macros = [('ATLAS_INFO', '"\\"3.8.4\\""')]
    include_dirs = ['/usr/include/atlas']

  FOUND:
    libraries = ['ptf77blas', 'ptcblas', 'atlas']
    library_dirs = ['/usr/lib/atlas-base']
    language = c
    define_macros = [('ATLAS_INFO', '"\\"3.8.4\\""')]
    include_dirs = ['/usr/include/atlas']

lapack_opt_info:
lapack_mkl_info:
mkl_info:
  libraries mkl,vml,guide not found in /usr/local/lib
  libraries mkl,vml,guide not found in /usr/lib
  NOT AVAILABLE

  NOT AVAILABLE

atlas_threads_info:
Setting PTATLAS=ATLAS
  libraries ptf77blas,ptcblas,atlas not found in /usr/local/lib
  libraries lapack_atlas not found in /usr/local/lib
  libraries lapack not found in /usr/lib/atlas-base
numpy.distutils.system_info.atlas_threads_info
Setting PTATLAS=ATLAS
Setting PTATLAS=ATLAS
  FOUND:
    libraries = ['lapack', 'ptf77blas', 'ptcblas', 'atlas']
    library_dirs = ['/usr/lib/atlas-base/atlas', '/usr/lib/atlas-base']
    language = f77
    define_macros = [('ATLAS_INFO', '"\\"3.8.4\\""')]
    include_dirs = ['/usr/include/atlas']

  FOUND:
    libraries = ['lapack', 'ptf77blas', 'ptcblas', 'atlas']
    library_dirs = ['/usr/lib/atlas-base/atlas', '/usr/lib/atlas-base']
    language = f77
    define_macros = [('ATLAS_INFO', '"\\"3.8.4\\""')]
    include_dirs = ['/usr/include/atlas']

...

Any ideas?

best,

Jared
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