[SciPy-Dev] request for testing: SciPy 0.7.2 RC1 + NumPy 1.4.1 RC1
Alan G Isaac
aisaac at american.edu
Mon Apr 5 23:08:48 EDT 2010
Python 2.6.5 (32bit) on Vista (64bit), no gcc.
Alan Isaac
c:\Python26\lib\site-packages\scipy\spatial\__init__.py:7: RuntimeWarning: numpy.dtype size changed, may indicate binary incompatibility
from ckdtree import *
c:\Python26\lib\site-packages\scipy\spatial\__init__.py:7: RuntimeWarning: numpy.flatiter size changed, may indicate binary incompatibility
from ckdtree import *
c:\Python26\lib\site-packages\scipy\linsolve\__init__.py:4: DeprecationWarning: scipy.linsolve has moved to scipy.sparse.linalg.dsolve
warn('scipy.linsolve has moved to scipy.sparse.linalg.dsolve', DeprecationWarning)
c:\Python26\lib\site-packages\scipy\stats\distributions.py:27: RuntimeWarning: numpy.dtype size changed, may indicate binary incompatibility
import vonmises_cython
c:\Python26\lib\site-packages\scipy\stats\distributions.py:27: RuntimeWarning: numpy.flatiter size changed, may indicate binary incompatibility
import vonmises_cython
.............................................................................................................................................................................................................................c:\Python26\lib\site-packages\scipy\interpolate\fitpack2.py:498: 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)
.....c:\Python26\lib\site-packages\scipy\interpolate\fitpack2.py:439: UserWarning:
The required storage space exceeds the available storage space: nxest
or nyest too small, or s too small.
The weighted least-squares spline corresponds to the current set of
knots.
warnings.warn(message)
...........................................K..K.................................................................................................c:\Python26\lib\site-packages\scipy\io\matlab\mio.py:111: Warning: Unreadable variable "testfunc", because "Cannot read matlab functions"
matfile_dict = MR.get_variables()
..........c:\Python26\lib\site-packages\scipy\io\matlab\mio.py:165: FutureWarning: Using oned_as default value ('column') This will change to 'row' in future versions
oned_as=oned_as)
.........................c:\Python26\lib\site-packages\scipy\io\matlab\tests\test_mio.py:438: FutureWarning: Using oned_as default value ('column') This will change to 'row' in future versions
mfw = MatFile5Writer(StringIO())
........c:\Python26\lib\site-packages\scipy\io\matlab\mio.py:84: FutureWarning: Using struct_as_record default value (False) This will change to True in future versions
return MatFile5Reader(byte_stream, **kwargs)
...............................Warning: 1000000 bytes requested, 20 bytes read.
.c:\Python26\lib\site-packages\numpy\lib\utils.py:140: DeprecationWarning: `write_array` is deprecated!
This function is replaced by numpy.savetxt which allows the same functionality
through a different syntax.
warnings.warn(depdoc, DeprecationWarning)
c:\Python26\lib\site-packages\numpy\lib\utils.py:140: DeprecationWarning: `read_array` is deprecated!
The functionality of read_array is in numpy.loadtxt which allows the same
functionality using different syntax.
warnings.warn(depdoc, DeprecationWarning)
.......................c:\Python26\lib\site-packages\numpy\lib\utils.py:140: DeprecationWarning: `npfile` is deprecated!
You can achieve the same effect as using npfile, using ndarray.tofile
and numpy.fromfile.
Even better you can use memory-mapped arrays and data-types to map out a
file format for direct manipulation in NumPy.
warnings.warn(depdoc, DeprecationWarning)
.........................................................................................................................................................SSSSSS......SSSSSS......SSSS.............................................................S.....................................................c:\Python26\lib\site-packages\scipy\linalg\decomp.py:1177: DeprecationWarning: qr econ argument will be removed after scipy 0.7. The economy transform will then be available through the mode='economic' argument.
"the mode='economic' argument.", DeprecationWarning)
.....................................................................................................................................................................................................................................................................................................SSS.......................................................................................................................................................................................................................................................................................................................................................................................................................................................E..........................................................SSSSSSSSSSS........................................................................................................................................................................................
...................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................K.K........................................................................................................................................................................................................................................................................................................................................................................................................................................................
...................................................................................................................................................................................................................................c:\Python26\lib\site-packages\numpy\lib\function_base.py:185: Warning:
The new semantics of histogram is now the default and the `new`
keyword will be removed in NumPy 1.4.
""", Warning)
....................................................................................S..................................................................................c:\Python26\lib\site-packages\scipy\stats\stats.py:420: DeprecationWarning: scipy.stats.mean is deprecated; please update your code to use numpy.mean.
Please note that:
- numpy.mean axis argument defaults to None, not 0
- numpy.mean has a ddof argument to replace bias in a more general manner.
scipy.stats.mean(a, bias=True) can be replaced by numpy.mean(x,
axis=0, ddof=1).
axis=0, ddof=1).""", DeprecationWarning)
.c:\Python26\lib\site-packages\scipy\stats\stats.py:1329: DeprecationWarning: scipy.stats.std is deprecated; please update your code to use numpy.std.
Please note that:
- numpy.std axis argument defaults to None, not 0
- numpy.std has a ddof argument to replace bias in a more general manner.
scipy.stats.std(a, bias=True) can be replaced by numpy.std(x,
axis=0, ddof=0), scipy.stats.std(a, bias=False) by numpy.std(x, axis=0,
ddof=1).
ddof=1).""", DeprecationWarning)
c:\Python26\lib\site-packages\scipy\stats\stats.py:1305: DeprecationWarning: scipy.stats.var is deprecated; please update your code to use numpy.var.
Please note that:
- numpy.var axis argument defaults to None, not 0
- numpy.var has a ddof argument to replace bias in a more general manner.
scipy.stats.var(a, bias=True) can be replaced by numpy.var(x,
axis=0, ddof=0), scipy.stats.var(a, bias=False) by var(x, axis=0,
ddof=1).
ddof=1).""", DeprecationWarning)
.c:\Python26\lib\site-packages\scipy\stats\morestats.py:603: UserWarning: Ties preclude use of exact statistic.
warnings.warn("Ties preclude use of exact statistic.")
......c:\Python26\lib\site-packages\scipy\stats\stats.py:498: DeprecationWarning: scipy.stats.median is deprecated; please update your code to use numpy.median.
Please note that:
- numpy.median axis argument defaults to None, not 0
- numpy.median has a ddof argument to replace bias in a more general manner.
scipy.stats.median(a, bias=True) can be replaced by numpy.median(x,
axis=0, ddof=1).
axis=0, ddof=1).""", DeprecationWarning)
............................................................................................................................................................................................................................'gcc' is not recognized as an internal or external command,
operable program or batch file.
'gcc' is not recognized as an internal or external command,
operable program or batch file.
'gcc' is not recognized as an internal or external command,
operable program or batch file.
'gcc' is not recognized as an internal or external command,
operable program or batch file.
'gcc' is not recognized as an internal or external command,
operable program or batch file.
'gcc' is not recognized as an internal or external command,
operable program or batch file.
'gcc' is not recognized as an internal or external command,
operable program or batch file.
'gcc' is not recognized as an internal or external command,
operable program or batch file.
'gcc' is not recognized as an internal or external command,
operable program or batch file.
'gcc' is not recognized as an internal or external command,
operable program or batch file.
'gcc' is not recognized as an internal or external command,
operable program or batch file.
.........................Running unit tests for scipy
NumPy version 1.4.1rc1
NumPy is installed in c:\Python26\lib\site-packages\numpy
SciPy version 0.7.2rc1
SciPy is installed in c:\Python26\lib\site-packages\scipy
Python version 2.6.5 (r265:79096, Mar 19 2010, 21:48:26) [MSC v.1500 32 bit (Intel)]
nose version 0.11.0
Result may be inaccurate, approximate err = 1.32856435107e-08
Result may be inaccurate, approximate err = 1.00314019744e-10
Warning: friedmanchisquare test using Chisquared aproximation
warning: specified build_dir '_bad_path_' 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
error removing c:\users\alanis~1\appdata\local\temp\tmpyqscdicat_test: c:\users\alanis~1\appdata\local\temp\tmpyqscdicat_test: The directory is not empty
...'gcc' is not recognized as an internal or external command,
operable program or batch file.
'gcc' is not recognized as an internal or external command,
operable program or batch file.
...............................................................................................
======================================================================
ERROR: line-search Newton conjugate gradient optimization routine
----------------------------------------------------------------------
Traceback (most recent call last):
File "c:\Python26\lib\site-packages\scipy\optimize\tests\test_optimize.py", line 113, in test_ncg
retall=False)
File "c:\Python26\lib\site-packages\scipy\optimize\optimize.py", line 1088, in fmin_ncg
alphak, fc, gc, old_fval = line_search_BFGS(f,xk,pk,gfk,old_fval)
File "c:\Python26\lib\site-packages\scipy\optimize\optimize.py", line 591, in line_search_BFGS
phi_a2 = f(*((xk+alpha2*pk,)+args))
File "c:\Python26\lib\site-packages\scipy\optimize\optimize.py", line 97, in function_wrapper
return function(x, *args)
File "c:\Python26\lib\site-packages\scipy\optimize\tests\test_optimize.py", line 39, in func
raise RuntimeError, "too many iterations in optimization routine"
RuntimeError: too many iterations in optimization routine
----------------------------------------------------------------------
Ran 3488 tests in 43.359s
FAILED (KNOWNFAIL=4, SKIP=32, errors=1)
building extensions here: c:\users\alanis~1\appdata\local\temp\Alan Isaac\python26_compiled\m2
ATLAS version 3.8.3 built by Administrator on Sun Nov 29 23:44:07 KST 2009:
UNAME : CYGWIN_NT-5.1 david-70582ba55 1.5.25(0.156/4/2) 2008-06-12 19:34 i686 Cygwin
INSTFLG : -1 0 -a 1
ARCHDEFS : -DATL_OS_WinNT -DATL_ARCH_Corei7 -DGCCWIN -DUseClock -DATL_SSE3 -DATL_SSE2 -DATL_SSE1 -DATL_GAS_x8632
F2CDEFS : -DAdd__ -DF77_INTEGER=int -DStringSunStyle
CACHEEDGE: 524288
F77 : g77, version GNU Fortran (GCC) 3.4.4 (cygming special, gdc 0.12, using dmd 0.125)
F77FLAGS : -O -m32
SMC : gcc, version gcc (GCC) 3.4.4 (cygming special, gdc 0.12, using dmd 0.125)
SMCFLAGS : -fomit-frame-pointer -mfpmath=sse -msse3 -O2 -fno-schedule-insns2 -m32
SKC : gcc, version gcc (GCC) 3.4.4 (cygming special, gdc 0.12, using dmd 0.125)
SKCFLAGS : -fomit-frame-pointer -mfpmath=sse -msse3 -O2 -fno-schedule-insns2 -m32
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