[Numpy-discussion] Error building numpy from svn, 2nd attempt

David Huard david.huard at gmail.com
Tue Jul 4 08:28:02 CDT 2006


Hi John,

Here is a patch to fix the first error in test_twodim_base.py.

I'm sorry I can't help you with the rest.


David

2006/7/4, John Carter <jnc at ecs.soton.ac.uk>:
>
> Hi,
>
> As is the way posting to a news group stirs the brain cell into
> activity and the problem is solved. or rather shifted.
>
> I've downloaded the candidate version of mingw32 and using that to
> build numpy/scipy works, or rather it builds the extensions for Python 2.3
>
> I believe that there are still problems as both numpy and scipy fail
> their tests. I'm also dubious as to whether they are finding Altas and
> Lapack.
>
> Configuration:
>
> Windows XP SP2
> Cygwin = gcc version 3.4.4 (cygming special) (gdc 0.12, using dmd 0.125)
> MinGW = gcc version 3.4.5 (mingw special)
> Python = Python 2.3.3 (#51, Dec 18 2003, 20:22:39) [MSC v.1200 32 bit
> (Intel)] on win32
>
> scipy, numpy, Atlas, Lapack all downloaded within the last 2 days
>
>
> I've cut and pasted the error messages from the tests below.
>
> Any help gratefully received.
>
> John
>
>
> =====
> numpy
> =====
> D:.\numerical> python
> Python 2.3.3 (#51, Dec 18 2003, 20:22:39) [MSC v.1200 32 bit (Intel)] on
> win32
> Type "help", "copyright", "credits" or "license" for more information.
> >>> import numpy
> >>> numpy.test()
>    Found 5 tests for numpy.distutils.misc_util
>    Found 3 tests for numpy.lib.getlimits
>    Found 30 tests for numpy.core.numerictypes
>    Found 13 tests for numpy.core.umath
>    Found 3 tests for numpy.core.scalarmath
>    Found 8 tests for numpy.lib.arraysetops
>    Found 42 tests for numpy.lib.type_check
>    Found 101 tests for numpy.core.multiarray
>    Found 36 tests for numpy.core.ma
>    Found 10 tests for numpy.lib.twodim_base
>    Found 10 tests for numpy.core.defmatrix
>    Found 1 tests for numpy.lib.ufunclike
>    Found 38 tests for numpy.lib.function_base
>    Found 3 tests for numpy.dft.helper
>    Found 1 tests for numpy.lib.polynomial
>    Found 7 tests for numpy.core.records
>    Found 26 tests for numpy.core.numeric
>    Found 4 tests for numpy.lib.index_tricks
>    Found 46 tests for numpy.lib.shape_base
>    Found 0 tests for __main__
>
> ........................................................................................................
>
> ........................................................................................................
>
> .........E..............................................................................................
> ...........................
> ======================================================================
> ERROR: check_simple (numpy.lib.tests.test_twodim_base.test_histogram2d)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
>    File
> "C:\Python23\Lib\site-packages\numpy\lib\tests\test_twodim_base.py",
> line 137, in check_simple
>      np.random.seed(1)
>    File "mtrand.pyx", line 311, in mtrand.RandomState.seed
> SystemError: C:\sf\python\dist\src-maint23\Objects\longobject.c:240:
> bad argument to internal function
>
> ----------------------------------------------------------------------
> Ran 387 tests in 1.391s
>
> FAILED (errors=1)
> <unittest.TextTestRunner object at 0x010DB8F0>
> >>>
>
> =====
> scipy
> =====
> D:.\numerical> python
> Python 2.3.3 (#51, Dec 18 2003, 20:22:39) [MSC v.1200 32 bit (Intel)] on
> win32
> Type "help", "copyright", "credits" or "license" for more information.
> >>> import scipy
> >>> scipy.test()
> Overwriting lib=<module 'scipy.lib' from
> 'C:\PYTHON23\lib\site-packages\scipy\lib\__init__.pyc'> from
> C:\PYTHON23\lib\si
> te-packages\scipy\lib\__init__.pyc (was <module 'numpy.lib' from
> 'C:\PYTHON23\lib\site-packages\numpy\lib\__init__.pyc'>
>   from C:\PYTHON23\lib\site-packages\numpy\lib\__init__.pyc)
> Overwriting fft=<function fft at 0x013E7AB0> from scipy.fftpack.basic
> (was <function fft at 0x00AAEE30> from numpy.dft.f
> ftpack)
> Overwriting ifft=<function ifft at 0x013E7AF0> from
> scipy.fftpack.basic (was <function ifft at 0x00AAEE70> from numpy.df
> t.fftpack)
>    Found 4 tests for scipy.io.array_import
>    Found 128 tests for scipy.linalg.fblas
>    Found 397 tests for scipy.ndimage
>    Found 10 tests for scipy.integrate.quadpack
>    Found 97 tests for scipy.stats.stats
>    Found 47 tests for scipy.linalg.decomp
>    Found 2 tests for scipy.integrate.quadrature
>    Found 95 tests for scipy.sparse.sparse
>    Found 20 tests for scipy.fftpack.pseudo_diffs
>    Found 6 tests for scipy.optimize.optimize
>    Found 5 tests for scipy.interpolate.fitpack
>    Found 1 tests for scipy.interpolate
>    Found 12 tests for scipy.io.mmio
>    Found 10 tests for scipy.stats.morestats
>    Found 4 tests for scipy.linalg.lapack
>    Found 18 tests for scipy.fftpack.basic
>    Found 4 tests for scipy.linsolve.umfpack
>    Found 4 tests for scipy.optimize.zeros
>    Found 41 tests for scipy.linalg.basic
>    Found 2 tests for scipy.maxentropy.maxentropy
>    Found 358 tests for scipy.special.basic
>    Found 128 tests for scipy.lib.blas.fblas
>    Found 7 tests for scipy.linalg.matfuncs
>
> ****************************************************************
> 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 tests for scipy.lib.lapack
>    Found 1 tests for scipy.optimize.cobyla
>    Found 16 tests for scipy.lib.blas
>    Found 1 tests for scipy.integrate
>    Found 14 tests for scipy.linalg.blas
>    Found 70 tests for scipy.stats.distributions
>    Found 4 tests for scipy.fftpack.helper
>    Found 4 tests for scipy.signal.signaltools
>    Found 0 tests for __main__
>
> 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
>
> ........................................................................................................................
>
> ........................................................................................................................
>
> ........................................................................................................................
>
> ........................................................................................................................
>
> .........................................................................Took
> 13 points.
> ..........Resizing... 16 17 24
> Resizing... 20 7 35
> Resizing... 23 7 47
> Resizing... 24 25 58
> Resizing... 28 7 68
> Resizing... 28 27 73
> .....Use minimum degree ordering on A'+A.
> ........................Use minimum degree ordering on A'+A.
> ...................Resizing... 16 17 24
> Resizing... 20 7 35
> Resizing... 23 7 47
> Resizing... 24 25 58
> Resizing... 28 7 68
> Resizing... 28 27 73
> .....Use minimum degree ordering on A'+A.
> .................Resizing... 16 17 24
> Resizing... 20 7 35
> Resizing... 23 7 47
> Resizing... 24 25 58
> Resizing... 28 7 68
> Resizing... 28 27 73
> .....Use minimum degree ordering on A'+A.
>
> ......................................C:\PYTHON23\lib\site-packages\scipy\interpolate\fitpack2.py:410:
> 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)
> ....................Ties preclude use of exact statistic.
> ..Ties preclude use of exact statistic.
> ........
> ****************************************************************
> 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.
> ****************************************************************
>
> ....................data-ftype: z compared to data D
> Calling _superlu.zgssv
> Use minimum degree ordering on A'+A.
> .data-ftype: c compared to data F
> Calling _superlu.cgssv
> Use minimum degree ordering on A'+A.
> .data-ftype: d compared to data d
> Calling _superlu.dgssv
> Use minimum degree ordering on A'+A.
> .data-ftype: s compared to data f
> Calling _superlu.sgssv
> Use minimum degree ordering on A'+A.
>
> ........................................................................................................................
>
> ........................................................................................................................
> ....................................Gegenbauer, a =  2.7337413228
>
> ........................................................................................................................
> .............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
> ...Result may be inaccurate, approximate err = 4.1928136851e-009
> ...Result may be inaccurate, approximate err = 7.27595761418e-012
> .............................................F................Residual:
> 1.05006950319e-007
> .
> ****************************************************************
> 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.
> ****************************************************************
>
>
> ............................................................................................
> ======================================================================
> FAIL: check_simple (scipy.optimize.tests.test_cobyla.test_cobyla)
> ----------------------------------------------------------------------
> Traceback (most recent call last):
>    File
> "C:\Python23\Lib\site-packages\scipy\optimize\tests\test_cobyla.py",
> line 20, in check_simple
>      assert_almost_equal(x, [x0, x1], decimal=5)
>    File "C:\Python23\Lib\site-packages\numpy\testing\utils.py", line
> 152, in assert_almost_equal
>      return assert_array_almost_equal(actual, desired, decimal, err_msg)
>    File "C:\Python23\Lib\site-packages\numpy\testing\utils.py", line
> 222, in assert_array_almost_equal
>      header='Arrays are not almost equal')
>    File "C:\Python23\Lib\site-packages\numpy\testing\utils.py", line
> 207, in assert_array_compare
>      assert cond, msg
> AssertionError:
> Arrays are not almost equal
>
> (mismatch 100.0%)
>   x: array([ 4.957975  ,  0.64690335])
>   y: array([ 4.95535625,  0.66666667])
>
> ----------------------------------------------------------------------
> Ran 1552 tests in 5.828s
>
> FAILED (failures=1)
> <unittest.TextTestRunner object at 0x02671210>
> >>>
>
>
>
>
>
> Dr. John N. Carter.                                        E-Mail :
> jnc at ecs.soton.ac.uk
> Building 1, Room
> 2005                                   http://www.ecs.soton.ac.uk/~jnc/
> Information: Signals, Images, Systems            Phone  : +44 (0) 23 8059
> 2405
> School of Electronics & Computer Science,     Fax      : +44 (0) 23 8059
> 4498
> Southampton University, Hants, UK SO17 1BJ.
>
>
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