[SciPy-user] [Numpy-discussion] scipy 0.7.1 rc3

Fri Jun 12 19:09:03 EDT 2009

On Fri, Jun 12, 2009 at 6:26 PM, George Nurser<gnurser at googlemail.com> wrote:
> Hi,
> I have just two failures on svn r 5835, which I believe is the same as
> 0.7.1.rc3.

Are you sure you are using the tag version and not the trunk version?
I think the test failure with ksone was created when I corrected and
tightened the test in revision 5831 in the trunk,

the precision in 0.7.1 is set low enough that it should not report
this as a failure.

I didn't catch the error in the changes to the trunk because I skipped
the slow tests. This also means there is a bug or imprecision in ksone
or special.smirnov

Josef

> OS x 10.5.7,python.org 2.5.2, numpy svn 7044, gfortran 4.3.2, apple gcc 4.0.1.
> scipy built with
> python setup.py build_src build_clib config_fc --fcompiler=gnu95
> --f77flags=" -O3 -march=core2" build_ext config_fc --fcompiler=gnu95
> --f77flags=" -O3 -march=core2" build > & inst.log &
>
> scipy.test('10')
> [snip]
> =====================================================================
> FAIL: test_random_real (test_basic.TestSingleIFFT)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
>  File "/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/site-packages/scipy/fftpack/tests/test_basic.py",
> line 205, in test_random_real
>    assert_array_almost_equal (y1, x)
>  File "/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/site-packages/numpy/testing/utils.py",
> line 537, in assert_array_almost_equal
>    header='Arrays are not almost equal')
>  File "/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/site-packages/numpy/testing/utils.py",
> line 395, in assert_array_compare
>    raise AssertionError(msg)
> AssertionError:
> Arrays are not almost equal
>
> (mismatch 0.900900900901%)
>  x: array([ 0.56936401 -1.61093638e-09j,  0.42778808 -9.66561764e-09j,
>        0.52186930 -1.07395759e-09j,  0.09524378 -1.19960097e-12j,
>        0.37034556 -1.55349547e-08j,  0.87382299 +7.88580223e-09j,...
>  y: array([ 0.56936431,  0.42778817,  0.52186954,  0.09524398,  0.37034538,
>        0.87382281,  0.11707421,  0.78889829,  0.92179215,  0.82394433,
>        0.23986711,  0.61445147,  0.64488971,  0.77991045,  0.91312933,...
>
> ======================================================================
> FAIL: test_continuous_basic.test_cont_basic_slow(<scipy.stats.distributions.ksone_gen
> object at 0x15d6f2d0>, (22,), 'ksone')
> ----------------------------------------------------------------------
> Traceback (most recent call last):
>  File "/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/site-packages/nose-0.10.3-py2.5.egg/nose/case.py",
> line 182, in runTest
>    self.test(*self.arg)
>  File "/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/site-packages/scipy/stats/tests/test_continuous_basic.py",
> line 290, in check_cdf_ppf
>    ' - cdf-ppf roundtrip')
>  File "/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/site-packages/numpy/testing/utils.py",
> line 262, in assert_almost_equal
>    return assert_array_almost_equal(actual, desired, decimal, err_msg)
>  File "/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/site-packages/numpy/testing/utils.py",
> line 537, in assert_array_almost_equal
>    header='Arrays are not almost equal')
>  File "/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/site-packages/numpy/testing/utils.py",
> line 395, in assert_array_compare
>    raise AssertionError(msg)
> AssertionError:
> Arrays are not almost equal
> ksone - cdf-ppf roundtrip
> (mismatch 33.3333333333%)
>  x: array([ 0.   ,  0.5  ,  0.999])
>  y: array([ 0.001,  0.5  ,  0.999])
>
> ----------------------------------------------------------------------
> Ran 4273 tests in 588.327s
>
> --George.
>
>
>
> 2009/6/12 David Cournapeau <david at ar.media.kyoto-u.ac.jp>:
>> Hi,
>>
>>    I have uploaded the binaries and source tarballs for 0.7.1rc3. The
>> rc3 fixes some issues in scipy.special, which caused wrong
>> behavior/crashes on some platforms. Hopefully, this will be the 0.7.1
>> release,
>>
>> cheers,
>>
>> David
>>
>> =========================
>> SciPy 0.7.1 Release Notes
>> =========================
>>
>> .. contents::
>>
>> SciPy 0.7.1 is a bug-fix release with no new features compared to 0.7.0.
>>
>> scipy.io
>> ========
>>
>> Bugs fixed:
>>
>> - Several fixes in Matlab file IO
>>
>> scipy.odr
>> =========
>>
>> Bugs fixed:
>>
>> - Work around a failure with Python 2.6
>>
>> scipy.signal
>> ============
>>
>> Memory leak in lfilter have been fixed, as well as support for array object
>>
>> Bugs fixed:
>>
>> - #880, #925: lfilter fixes
>> - #871: bicgstab fails on Win32
>>
>>
>> scipy.sparse
>> ============
>>
>> Bugs fixed:
>>
>> - #883: scipy.io.mmread with scipy.sparse.lil_matrix broken
>> - lil_matrix and csc_matrix reject now unexpected sequences,
>>  cf. http://thread.gmane.org/gmane.comp.python.scientific.user/19996
>>
>> scipy.special
>> =============
>>
>> Several bugs of varying severity were fixed in the special functions:
>>
>> - #503, #640: iv: problems at large arguments fixed by new implementation
>> - #623: jv: fix errors at large arguments
>> - #679: struve: fix wrong output for v < 0
>> - #803: pbdv produces invalid output
>> - #804: lqmn: fix crashes on some input
>> - #823: betainc: fix documentation
>> - #834: exp1 strange behavior near negative integer values
>> - #852: jn_zeros: more accurate results for large s, also in
>> jnp/yn/ynp_zeros
>> - #853: jv, yv, iv: invalid results for non-integer v < 0, complex x
>> - #854: jv, yv, iv, kv: return nan more consistently when out-of-domain
>> - #927: ellipj: fix segfault on Windows
>> - #946: ellpj: fix segfault on Mac OS X/python 2.6 combination.
>> - ive, jve, yve, kv, kve: with real-valued input, return nan for
>> out-of-domain
>>  instead of returning only the real part of the result.
>>
>> Also, when ``scipy.special.errprint(1)`` has been enabled, warning
>> messages are now issued as Python warnings instead of printing them to
>> stderr.
>>
>>
>> scipy.stats
>> ===========
>>
>> - linregress, mannwhitneyu, describe: errors fixed
>> - kstwobign, norm, expon, exponweib, exponpow, frechet, genexpon, rdist,
>>  truncexpon, planck: improvements to numerical accuracy in distributions
>>
>> Windows binaries for python 2.6
>> ===============================
>>
>> python 2.6 binaries for windows are now included. The binary for python 2.5
>> requires numpy 1.2.0 or above, and and the one for python 2.6 requires numpy
>> 1.3.0 or above.
>>
>> Universal build for scipy
>> =========================
>>
>> Mac OS X binary installer is now a proper universal build, and does not
>> depend
>> on gfortran anymore (libgfortran is statically linked). The python 2.5
>> version
>> of scipy requires numpy 1.2.0 or above, the python 2.6 version requires
>> numpy
>> 1.3.0 or above.
>>
>> Checksums
>> =========
>>
>> 9dd5af43cc26ae6d38a13b373ba430fa
>> release/installers/scipy-0.7.1rc3-py2.6-python.org.dmg
>> 290c2e056fda1f86dfa9f3a76d207a8c
>> release/installers/scipy-0.7.1rc3-win32-superpack-python2.6.exe
>> d582dff7535d2b64a097fb4bfbc75d09
>> release/installers/scipy-0.7.1rc3-win32-superpack-python2.5.exe
>> a19400ccfd65d1a0a5030848af6f78ea  release/installers/scipy-0.7.1rc3.tar.gz
>> d4ebf322c62b09c4ebaad7b67f92d032  release/installers/scipy-0.7.1rc3.zip
>> a0ea0366b178a7827f10a480f97c3c47
>> release/installers/scipy-0.7.1rc3-py2.5-python.org.dmg
>>
>> _______________________________________________
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>>
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