Hi again (sorry for the second post: the first one was scrubbed), I now went through a full install of atlas, lapack, blas, numpy, scipy again. I still have some failure in scipy (none in numpy except for the umfpack which I haven't installed) you can find below. I also include the explicit site.cfg that I had to twiggle in order for scipy to find atlas (no Environment variable or other way did the work for some reason): it looks weird if I compare it to "advised" site.cfg but this is the only option that recognised atlas properly. any help is welcome as always. thanks again Eric ======================= below is a summary of: 1/ the failure in scipy 2/ my site.cfg used for building numpy and scipy *************************************************************************************************** ******** Output of scipy.test() = (starting with some failure due to the lack of umfpack and then..): .................... Warning: FAILURE importing tests for <module 'scipy.linsolve.umfpack.umfpack' from '...y/linsolve/umfpack/umfpack.pyc'> /usr/local/lib/python2.4/site-packages/scipy/linsolve/umfpack/tests/test_umfpack.py:17: AttributeError: 'module' object has no attribute 'umfpack' (in ?) ................................ Found 4 tests for scipy.io.recaster Warning: FAILURE importing tests for <module 'scipy.linsolve.umfpack' from '.../linsolve/umfpack/__init__.pyc'> /usr/local/lib/python2.4/site-packages/scipy/linsolve/umfpack/tests/test_umfpack.py:17: AttributeError: 'module' object has no attribute 'umfpack' (in ?) ................... ..zswap:n=4 ..zswap:n=3 ..................Residual: 1.05006950608e-07 ......................................................................................... ====================================================================== FAIL: check_syevr (scipy.lib.tests.test_lapack.test_flapack_float) ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/local/lib/python2.4/site-packages/scipy/lib/lapack/tests/esv_tests.py", line 41, in check_syevr assert_array_almost_equal(w,exact_w) File "/usr/local/lib/python2.4/site-packages/numpy/testing/utils.py", line 230, in assert_array_almost_equal header='Arrays are not almost equal') File "/usr/local/lib/python2.4/site-packages/numpy/testing/utils.py", line 215, in assert_array_compare assert cond, msg AssertionError: Arrays are not almost equal (mismatch 33.3333333333%) x: array([-0.66992444, 0.48769444, 9.18222618], dtype=float32) y: array([-0.66992434, 0.48769389, 9.18223045]) ====================================================================== FAIL: check_syevr_irange (scipy.lib.tests.test_lapack.test_flapack_float) ---------------------------------------------------------------------- Traceback (most recent call last): File "/usr/local/lib/python2.4/site-packages/scipy/lib/lapack/tests/esv_tests.py", line 66, in check_syevr_irange assert_array_almost_equal(w,exact_w[rslice]) File "/usr/local/lib/python2.4/site-packages/numpy/testing/utils.py", line 230, in assert_array_almost_equal header='Arrays are not almost equal') File "/usr/local/lib/python2.4/site-packages/numpy/testing/utils.py", line 215, in assert_array_compare assert cond, msg AssertionError: Arrays are not almost equal (mismatch 33.3333333333%) x: array([-0.66992444, 0.48769444, 9.18222618], dtype=float32) y: array([-0.66992434, 0.48769389, 9.18223045]) ---------------------------------------------------------------------- Ran 1619 tests in 5.764s FAILED (failures=2) *************************************************************************************************** ******** My site.cfg used for both numpy and scipy ******** it finds atlas, but that's all. If I uncomment the lines on lapack_opt and blas_opt, it finds the [DEFAULT] library_dirs = /usr/local/lib/atlas include_dirs = /usr/local/lib/atlas [atlas] library_dirs = /usr/local/lib/atlas atlas_libs = lapack, f77blas, cblas, atlas # [blas_opt] # library_dirs = /usr/local/lib/atlas # blas_libs = fblas, f77blas, cblas # [lapack_opt] # library_dirs = /usr/local/lib/atlas # lapack_libs = lapack [blas] library_dirs = /usr/local/lib/atlas libraries = f77blas, cblas, atlas # [lapack] library_dirs = /usr/local/lib/atlas libraries = lapack, f77blas, cblas, atlas [fftw] libraries = fftw3 -- ==================================================================== Eric Emsellem emsellem@obs.univ-lyon1.fr Centre de Recherche Astrophysique de Lyon 9 av. Charles-Andre tel: +33 (0)4 78 86 83 84 69561 Saint-Genis Laval Cedex fax: +33 (0)4 78 86 83 86 France http://www-obs.univ-lyon1.fr/eric.emsellem ====================================================================