[SciPy-user] Some failing tests

Mon Oct 6 12:26:25 EDT 2008

Sorry. That should have read RedHat 4 32-bit (not 3 & 4). Also, using
numpy 1.1.1.

On Mon, Oct 6, 2008 at 11:19 AM, chris <cdcasey at gmail.com> wrote:
> when i run scipy.test() on RedHat 32-bit 3 & 4, I get the following
> feedback. Are these things I need to worry about? It's running scipy
> 0.6.0. Not sure if these are fixed in the next version, or if there's
> a way I can fix them now....
>
>
>>>> import scipy
>>>> scipy.test()
> Failed importing scipy.linsolve.umfpack: 'module' object has no
> attribute 'umfpack'
>  Found 9/9 tests for scipy.cluster.tests.test_vq
>  Found 20/20 tests for scipy.fftpack.tests.test_pseudo_diffs
>  Found 4/4 tests for scipy.fftpack.tests.test_helper
>  Found 18/18 tests for scipy.fftpack.tests.test_basic
>  Found 3/3 tests for scipy.integrate.tests.test_quadrature
>  Found 1/1 tests for scipy.integrate.tests.test_integrate
>  Found 10/10 tests for scipy.integrate.tests.test_quadpack
>  Found 6/6 tests for scipy.tests.test_interpolate
>  Found 6/6 tests for scipy.tests.test_fitpack
>  Found 13/13 tests for scipy.io.tests.test_mmio
>  Found 4/4 tests for scipy.io.tests.test_recaster
>  Found 4/4 tests for scipy.io.tests.test_array_import
>  Found 5/5 tests for scipy.io.tests.test_npfile
>  Found 28/28 tests for scipy.io.tests.test_mio
>  Found 128/128 tests for scipy.lib.blas.tests.test_fblas
>  Found 16/16 tests for scipy.lib.blas.tests.test_blas
>
> ****************************************************************
> WARNING: clapack module is empty
> -----------
> See scipy/INSTALL.txt for troubleshooting.
> Notes:
> * If atlas library is not found by numpy/distutils/system_info.py,
>  then scipy uses flapack instead of clapack.
> ****************************************************************
>
>  Found 42/42 tests for scipy.lib.lapack.tests.test_lapack
>  Found 6/6 tests for scipy.linalg.tests.test_iterative
>  Found 41/41 tests for scipy.linalg.tests.test_basic
>  Found 128/128 tests for scipy.linalg.tests.test_fblas
>  Found 72/72 tests for scipy.linalg.tests.test_decomp
>  Found 4/4 tests for scipy.linalg.tests.test_lapack
> <module 'scipy.linalg.fblas' from
> '/home/ccasey/epd/lib/python2.5/site-packages/scipy-0.6.0.0006_s-py2.5-linux-i686.egg/scipy/linalg/fblas.so'>
>  Found 16/16 tests for scipy.linalg.tests.test_blas
>  Found 7/7 tests for scipy.linalg.tests.test_matfuncs
> Failed importing
> /home/ccasey/epd/lib/python2.5/site-packages/scipy-0.6.0.0006_s-py2.5-linux-i686.egg/scipy/linsolve/umfpack/tests/test_umfpack.py:
> 'module' object has no attribute 'umfpack'
>  Found 2/2 tests for scipy.maxentropy.tests.test_maxentropy
>  Found 3/3 tests for scipy.tests.test_pilutil
>  Found 395/395 tests for scipy.ndimage.tests.test_ndimage
>  Found 5/5 tests for scipy.odr.tests.test_odr
>  Found 8/8 tests for scipy.optimize.tests.test_optimize
>  Found 1/1 tests for scipy.optimize.tests.test_cobyla
>  Found 10/10 tests for scipy.optimize.tests.test_nonlin
>  Found 4/4 tests for scipy.optimize.tests.test_zeros
>  Found 5/5 tests for scipy.signal.tests.test_signaltools
>  Found 4/4 tests for scipy.signal.tests.test_wavelets
>  Found 152/152 tests for scipy.sparse.tests.test_sparse
>  Found 342/342 tests for scipy.special.tests.test_basic
>  Found 3/3 tests for scipy.special.tests.test_spfun_stats
>  Found 10/10 tests for scipy.stats.tests.test_morestats
>  Found 107/107 tests for scipy.stats.tests.test_stats
>  Found 73/73 tests for scipy.stats.tests.test_distributions
> building extensions here: /home/ccasey/.python25_compiled/m10
>  Found 1/1 tests for scipy.weave.tests.test_ext_tools
>  Found 0/0 tests for scipy.weave.tests.test_c_spec
>  Found 74/74 tests for scipy.weave.tests.test_size_check
>  Found 2/2 tests for scipy.weave.tests.test_blitz_tools
>  Found 0/0 tests for scipy.weave.tests.test_scxx_object
>  Found 0/0 tests for scipy.weave.tests.test_scxx_dict
>  Found 0/0 tests for scipy.weave.tests.test_scxx_sequence
>  Found 26/26 tests for scipy.weave.tests.test_catalog
>  Found 1/1 tests for scipy.weave.tests.test_ast_tools
>  Found 0/0 tests for scipy.weave.tests.test_inline_tools
>  Found 3/3 tests for scipy.weave.tests.test_standard_array_spec
> Failed importing
> /home/ccasey/epd/lib/python2.5/site-packages/scipy-0.6.0.0006_s-py2.5-linux-i686.egg/scipy/weave/tests/test_wx_spec.py:
> Could not locate wxPython base directory.
>  Found 16/16 tests for scipy.weave.tests.test_slice_handler
>  Found 9/9 tests for scipy.weave.tests.test_build_tools
> .../home/ccasey/epd/lib/python2.5/site-packages/scipy-0.6.0.0006_s-py2.5-linux-i686.egg/scipy/cluster/vq.py:477:
> UserWarning: One of the clusters is empty. Re-run kmean with a
> different initialization.
>  warnings.warn("One of the clusters is empty. "
> exception raised as expected: One of the clusters is empty. Re-run
> kmean with a different initialization.
> ...................................................Residual: 1.05006950608e-07
> ................./home/ccasey/epd/lib/python2.5/site-packages/scipy-0.6.0.0006_s-py2.5-linux-i686.egg/scipy/interpolate/fitpack2.py:458:
> UserWarning:
> The coefficients of the spline returned have been computed as the
> minimal norm least-squares solution of a (numerically) rank deficient
> system (deficiency=7). If deficiency is large, the results may be
> inaccurate. Deficiency may strongly depend on the value of eps.
>  warnings.warn(message)
> .......................
> Don't worry about a warning regarding the number of bytes read.
> Warning: 1000000 bytes requested, 20 bytes read.
> ........................................caxpy:n=4
> ..caxpy:n=3
> ....ccopy:n=4
> ..ccopy:n=3
> .............cscal:n=4
> ....cswap:n=4
> ..cswap:n=3
> .....daxpy:n=4
> ..daxpy:n=3
> ....dcopy:n=4
> ..dcopy:n=3
> .............dscal:n=4
> ....dswap:n=4
> ..dswap:n=3
> .....saxpy:n=4
> ..saxpy:n=3
> ....scopy:n=4
> ..scopy:n=3
> .............sscal:n=4
> ....sswap:n=4
> ..sswap:n=3
> .....zaxpy:n=4
> ..zaxpy:n=3
> ....zcopy:n=4
> ..zcopy:n=3
> .............zscal:n=4
> ....zswap:n=4
> ..zswap:n=3
> ............................................FF................................................................caxpy:n=4
> ..caxpy:n=3
> ....ccopy:n=4
> ..ccopy:n=3
> .............cscal:n=4
> ....cswap:n=4
> ..cswap:n=3
> .....daxpy:n=4
> ..daxpy:n=3
> ....dcopy:n=4
> ..dcopy:n=3
> .............dscal:n=4
> ....dswap:n=4
> ..dswap:n=3
> .....saxpy:n=4
> ..saxpy:n=3
> ....scopy:n=4
> ..scopy:n=3
> .............sscal:n=4
> ....sswap:n=4
> ..sswap:n=3
> .....zaxpy:n=4
> ..zaxpy:n=3
> ....zcopy:n=4
> ..zcopy:n=3
> .............zscal:n=4
> ....zswap:n=4
> ..zswap:n=3
> ............................................................................
> ****************************************************************
> WARNING: clapack module is empty
> -----------
> See scipy/INSTALL.txt for troubleshooting.
> Notes:
> * If atlas library is not found by numpy/distutils/system_info.py,
>  then scipy uses flapack instead of clapack.
> ****************************************************************
>
> ..
> ****************************************************************
> WARNING: cblas module is empty
> -----------
> See scipy/INSTALL.txt for troubleshooting.
> Notes:
> * If atlas library is not found by numpy/distutils/system_info.py,
>  then scipy uses fblas instead of cblas.
> ****************************************************************
>
> .................Result may be inaccurate, approximate err = 5.71185593749e-09
> ................................................................................................................../home/ccasey/epd/lib/python2.5/site-packages/scipy-0.6.0.0006_s-py2.5-linux-i686.egg/scipy/ndimage/interpolation.py:41:
> UserWarning: Mode "reflect" may yield incorrect results on boundaries.
> Please use "mirror" instead.
>  warnings.warn('Mode "reflect" may yield incorrect results on '
> .................................................................................................................................................................................................................................................................................................................................................................Use
> minimum degree ordering on A'+A.
> .....................................Use minimum degree ordering on A'+A.
> .....................................Use minimum degree ordering on A'+A.
> ................................Use minimum degree ordering on A'+A.
> ....................................................................................................................................................................................................................................................................................................................................................0.2
> 0.2
> 0.2
> ......0.2
> ..0.2
> 0.2
> 0.2
> 0.2
> 0.2
> .....................Ties preclude use of exact statistic.
> ..Ties preclude use of exact statistic.
> ......................./home/ccasey/epd/lib/python2.5/site-packages/numpy-1.1.1.0001-py2.5-linux-i686.egg/numpy/lib/function_base.py:166:
> FutureWarning:
>        The semantics of histogram will be modified in
>        release 1.2 to improve outlier handling. The new behavior can be
>        obtained using new=True. Note that the new version accepts/returns
>        the bin edges instead of the left bin edges.
>        Please read the docstring for more information.
>  Please read the docstring for more information.""", FutureWarning)
> /home/ccasey/epd/lib/python2.5/site-packages/numpy-1.1.1.0001-py2.5-linux-i686.egg/numpy/lib/function_base.py:181:
> FutureWarning:
>                Outliers handling will change in version 1.2.
>                Please read the docstring for details.
>  Please read the docstring for details.""", FutureWarning)
> ..............................................................................................................................................................................................................................................................................................warning:
> specified build_dir '_bad_path_' does not exist or is not writable.
> Trying default locations
> ...warning: specified build_dir '..' does not exist or is not
> writable. Trying default locations
> ..warning: specified build_dir '_bad_path_' does not exist or is not
> writable. Trying default locations
> ...warning: specified build_dir '..' does not exist or is not
> writable. Trying default locations
> .
> ======================================================================
> FAIL: check_syevr (scipy.lib.lapack.tests.test_lapack.test_flapack_float)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
>  File "/home/ccasey/epd/lib/python2.5/site-packages/scipy-0.6.0.0006_s-py2.5-linux-i686.egg/scipy/lib/lapack/tests/esv_tests.py",
> line 41, in check_syevr
>    assert_array_almost_equal(w,exact_w)
>  File "/home/ccasey/epd/lib/python2.5/site-packages/numpy-1.1.1.0001-py2.5-linux-i686.egg/numpy/testing/utils.py",
> line 255, in assert_array_almost_equal
>    header='Arrays are not almost equal')
>  File "/home/ccasey/epd/lib/python2.5/site-packages/numpy-1.1.1.0001-py2.5-linux-i686.egg/numpy/testing/utils.py",
> line 240, 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.lapack.tests.test_lapack.test_flapack_float)----------------------------------------------------------------------
> Traceback (most recent call last):
>  File "/home/ccasey/epd/lib/python2.5/site-packages/scipy-0.6.0.0006_s-py2.5-linux-i686.egg/scipy/lib/lapack/tests/esv_tests.py",
> line 66, in check_syevr_irange
>    assert_array_almost_equal(w,exact_w[rslice])
>  File "/home/ccasey/epd/lib/python2.5/site-packages/numpy-1.1.1.0001-py2.5-linux-i686.egg/numpy/testing/utils.py",
> line 255, in assert_array_almost_equal
>    header='Arrays are not almost equal')
>  File "/home/ccasey/epd/lib/python2.5/site-packages/numpy-1.1.1.0001-py2.5-linux-i686.egg/numpy/testing/utils.py",
> line 240, 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 1847 tests in 6.389s
>
> FAILED (failures=2)
> <unittest._TextTestResult run=1847 errors=0 failures=2>
>