[SciPy-user] Some failing tests

chris cdcasey@gmail....
Mon Oct 6 11:55:30 CDT 2008


Thanks!

On Mon, Oct 6, 2008 at 11:40 AM, Nils Wagner
<nwagner@iam.uni-stuttgart.de> wrote:
> On Mon, 6 Oct 2008 11:26:25 -0500
>  chris <cdcasey@gmail.com> wrote:
>> 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@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>
>>>
>> _______________________________________________
>> SciPy-user mailing list
>> SciPy-user@scipy.org
>> http://projects.scipy.org/mailman/listinfo/scipy-user
>
>
> This is a known issue
> See
> http://scipy.org/scipy/scipy/ticket/375
>
>
> Nils
> _______________________________________________
> SciPy-user mailing list
> SciPy-user@scipy.org
> http://projects.scipy.org/mailman/listinfo/scipy-user
>


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