I wanted to finally upgrade my numpy, so I can build scipy trunk again, but I get test failures with numpy. And running the tests of the previously compiled version of scipy crashes in signaltools.
Is this a problem with my build (the usual official MingW on WindowsXP), or are there still ABI problems in numpy trunk? I did the build twice with (I think) clean directories and get the same result.
Thanks,
Josef
Python 2.5.2 (r252:60911, Feb 21 2008, 13:11:45) [MSC v.1310 32 bit (Intel)] on win32 Type "help", "copyright", "credits" or "license" for more information.
import numpy numpy.__file__
'C:\Josef\_progs\Subversion\numpy-trunk\dist\numpy-1.4.0.dev7539.win32\Pr ograms\Python25\Lib\site-packages\numpy\__init__.py'
numpy.test()
Running unit tests for numpy NumPy version 1.4.0.dev7539 NumPy is installed in C:\Josef_progs\Subversion\numpy-trunk\dist\numpy-1.4.0.de v7539.win32\Programs\Python25\Lib\site-packages\numpy Python version 2.5.2 (r252:60911, Feb 21 2008, 13:11:45) [MSC v.1310 32 bit (Int el)] nose version 0.11.1 ................................. \u03a3 .[[' abc' ''] ['12345' 'MixedCase'] ['123 345' 'UPPER']] ................................................................................ ................................................................................ ................................................................................ ................................................................................ ................................................................................ ................................................................................ ................................................................................ ............................K................................................... ..FF.......................FFFF................................................. ................................................................................ ................................................................................ ................................................................................ ................................................................................ ............................................................................C:\J osef_progs\Subversion\numpy-trunk\dist\numpy-1.4.0.dev7539.win32\Programs\Pytho n25\Lib\site-packages\numpy\lib\io.py:1332: ConversionWarning: Some errors were detected ! Line #2 (got 4 columns instead of 5) Line #12 (got 4 columns instead of 5) Line #22 (got 4 columns instead of 5) Line #32 (got 4 columns instead of 5) Line #42 (got 4 columns instead of 5) warnings.warn(errmsg, ConversionWarning) .C:\Josef_progs\Subversion\numpy-trunk\dist\numpy-1.4.0.dev7539.win32\Programs\ Python25\Lib\site-packages\numpy\lib\io.py:1332: ConversionWarning: Some errors were detected ! Line #2 (got 4 columns instead of 2) Line #12 (got 4 columns instead of 2) Line #22 (got 4 columns instead of 2) Line #32 (got 4 columns instead of 2) Line #42 (got 4 columns instead of 2) warnings.warn(errmsg, ConversionWarning) ................E.E.EE....................K........K............F............... ................................................................................ ................................................................................ ................................................................................ ................................................................................ ................................................................................ ..S............................................................................. ................................................................................ ................................................................................ ................................................................................ ................................................................................ ................................................................................ ............................. ====================================================================== ERROR: Test giving usecols with a comma-separated string ---------------------------------------------------------------------- Traceback (most recent call last): File "C:\Josef_progs\Subversion\numpy-trunk\dist\numpy-1.4.0.dev7539.win32\Pr ograms\Python25\Lib\site-packages\numpy\lib\tests\test_io.py", line 747, in test _usecols_as_css names="a, b, c", usecols="a, c") File "\Programs\Python25\Lib\site-packages\numpy\lib\io.py", line 1099, in gen fromtxt the docstring of the `genfromtxt` function. AttributeError: 'tuple' object has no attribute 'index'
====================================================================== ERROR: Test usecols with named columns ---------------------------------------------------------------------- Traceback (most recent call last): File "C:\Josef_progs\Subversion\numpy-trunk\dist\numpy-1.4.0.dev7539.win32\Pr ograms\Python25\Lib\site-packages\numpy\lib\tests\test_io.py", line 773, in test _usecols_with_named_columns usecols=('a', 'c'), **kwargs) File "\Programs\Python25\Lib\site-packages\numpy\lib\io.py", line 1099, in gen fromtxt the docstring of the `genfromtxt` function. AttributeError: 'tuple' object has no attribute 'index'
====================================================================== ERROR: Test with missing and filling values ---------------------------------------------------------------------- Traceback (most recent call last): File "C:\Josef_progs\Subversion\numpy-trunk\dist\numpy-1.4.0.dev7539.win32\Pr ograms\Python25\Lib\site-packages\numpy\lib\tests\test_io.py", line 861, in test _user_filling_values test = np.genfromtxt(StringIO.StringIO(data), **kwargs) File "\Programs\Python25\Lib\site-packages\numpy\lib\io.py", line 1127, in gen fromtxt See Also AttributeError: 'tuple' object has no attribute 'index'
====================================================================== ERROR: test_user_missing_values (test_io.TestFromTxt) ---------------------------------------------------------------------- Traceback (most recent call last): File "C:\Josef_progs\Subversion\numpy-trunk\dist\numpy-1.4.0.dev7539.win32\Pr ograms\Python25\Lib\site-packages\numpy\lib\tests\test_io.py", line 845, in test _user_missing_values **basekwargs) File "\Programs\Python25\Lib\site-packages\numpy\lib\io.py", line 1481, in maf romtxt File "\Programs\Python25\Lib\site-packages\numpy\lib\io.py", line 1127, in gen fromtxt See Also AttributeError: 'tuple' object has no attribute 'index'
====================================================================== FAIL: test_umath.test_hypot_special_values(1.#QNAN, 1.#INF) ---------------------------------------------------------------------- Traceback (most recent call last): File "c:\programs\python25\lib\site-packages\nose-0.11.1-py2.5.egg\nose\case.p y", line 183, in runTest self.test(*self.arg) File "C:\Josef_progs\Subversion\numpy-trunk\dist\numpy-1.4.0.dev7539.win32\Pr ograms\Python25\Lib\site-packages\numpy\core\tests\test_umath.py", line 211, in assert_hypot_isinf assert np.isinf(ncu.hypot(x, y)) AssertionError
====================================================================== FAIL: test_umath.test_hypot_special_values(1.#INF, 1.#QNAN) ---------------------------------------------------------------------- Traceback (most recent call last): File "c:\programs\python25\lib\site-packages\nose-0.11.1-py2.5.egg\nose\case.p y", line 183, in runTest self.test(*self.arg) File "C:\Josef_progs\Subversion\numpy-trunk\dist\numpy-1.4.0.dev7539.win32\Pr ograms\Python25\Lib\site-packages\numpy\core\tests\test_umath.py", line 211, in assert_hypot_isinf assert np.isinf(ncu.hypot(x, y)) AssertionError
====================================================================== FAIL: test_umath.test_arctan2_special_values(nan, 2.3561944901923448) ---------------------------------------------------------------------- Traceback (most recent call last): File "c:\programs\python25\lib\site-packages\nose-0.11.1-py2.5.egg\nose\case.p y", line 183, in runTest self.test(*self.arg) File "C:\Josef_progs\Subversion\numpy-trunk\dist\numpy-1.4.0.dev7539.win32\Pr ograms\Python25\Lib\site-packages\numpy\testing\utils.py", line 449, in assert_a lmost_equal raise AssertionError(msg) AssertionError: Arrays are not almost equal ACTUAL: nan DESIRED: 2.3561944901923448
====================================================================== FAIL: test_umath.test_arctan2_special_values(nan, -2.3561944901923448) ---------------------------------------------------------------------- Traceback (most recent call last): File "c:\programs\python25\lib\site-packages\nose-0.11.1-py2.5.egg\nose\case.p y", line 183, in runTest self.test(*self.arg) File "C:\Josef_progs\Subversion\numpy-trunk\dist\numpy-1.4.0.dev7539.win32\Pr ograms\Python25\Lib\site-packages\numpy\testing\utils.py", line 449, in assert_a lmost_equal raise AssertionError(msg) AssertionError: Arrays are not almost equal ACTUAL: nan DESIRED: -2.3561944901923448
====================================================================== FAIL: test_umath.test_arctan2_special_values(nan, 0.78539816339744828) ---------------------------------------------------------------------- Traceback (most recent call last): File "c:\programs\python25\lib\site-packages\nose-0.11.1-py2.5.egg\nose\case.p y", line 183, in runTest self.test(*self.arg) File "C:\Josef_progs\Subversion\numpy-trunk\dist\numpy-1.4.0.dev7539.win32\Pr ograms\Python25\Lib\site-packages\numpy\testing\utils.py", line 449, in assert_a lmost_equal raise AssertionError(msg) AssertionError: Arrays are not almost equal ACTUAL: nan DESIRED: 0.78539816339744828
====================================================================== FAIL: test_umath.test_arctan2_special_values(nan, -0.78539816339744828) ---------------------------------------------------------------------- Traceback (most recent call last): File "c:\programs\python25\lib\site-packages\nose-0.11.1-py2.5.egg\nose\case.p y", line 183, in runTest self.test(*self.arg) File "C:\Josef_progs\Subversion\numpy-trunk\dist\numpy-1.4.0.dev7539.win32\Pr ograms\Python25\Lib\site-packages\numpy\testing\utils.py", line 449, in assert_a lmost_equal raise AssertionError(msg) AssertionError: Arrays are not almost equal ACTUAL: nan DESIRED: -0.78539816339744828
====================================================================== FAIL: test_doctests (test_polynomial.TestDocs) ---------------------------------------------------------------------- Traceback (most recent call last): File "C:\Josef_progs\Subversion\numpy-trunk\dist\numpy-1.4.0.dev7539.win32\Pr ograms\Python25\Lib\site-packages\numpy\lib\tests\test_polynomial.py", line 90, in test_doctests return rundocs() File "C:\Josef_progs\Subversion\numpy-trunk\dist\numpy-1.4.0.dev7539.win32\Pr ograms\Python25\Lib\site-packages\numpy\testing\utils.py", line 951, in rundocs raise AssertionError("Some doctests failed:\n%s" % "\n".join(msg)) AssertionError: Some doctests failed: ********************************************************************** File "C:\Josef_progs\Subversion\numpy-trunk\dist\numpy-1.4.0.dev7539.win32\Prog rams\Python25\Lib\site-packages\numpy\lib\tests\test_polynomial.py", line 20, in test_polynomial Failed example: print poly1d([100e-90, 1.234567e-9j+3, -1234.999e8]) Expected: 2 1e-88 x + (3 + 1.235e-09j) x - 1.235e+11 Got: 2 1e-088 x + (3 + 1.235e-009j) x - 1.235e+011
---------------------------------------------------------------------- Ran 2140 tests in 13.281s
FAILED (KNOWNFAIL=3, SKIP=1, errors=4, failures=7) <nose.result.TextTestResult run=2140 errors=4 failures=7>
import scipy scipy.__file__
'c:\josef\eclipsegworkspace\scipy-trunk-work\scipytrunkcopy\scipy\__init__ .pyc'
scipy.test()
Running unit tests for scipy NumPy version 1.4.0.dev7539 NumPy is installed in C:\Josef_progs\Subversion\numpy-trunk\dist\numpy-1.4.0.de v7539.win32\Programs\Python25\Lib\site-packages\numpy SciPy version 0.8.0.dev SciPy is installed in c:\josef\eclipsegworkspace\scipy-trunk-work\scipytrunkcopy \scipy Python version 2.5.2 (r252:60911, Feb 21 2008, 13:11:45) [MSC v.1310 32 bit (Int el)] nose version 0.11.1 E..... ...
crash
with verbose the last tests are
test_rank1 (test_signaltools.TestCorrelateComplexSingle) ... ok test_rank3 (test_signaltools.TestCorrelateComplexSingle) ... ok test_rank1 (test_signaltools.TestCorrelateDouble) ... ok test_rank3 (test_signaltools.TestCorrelateDouble) ... ok test_rank1 (test_signaltools.TestCorrelateExtended) ... ok test_rank3 (test_signaltools.TestCorrelateExtended) ... ok test_rank1 (test_signaltools.TestCorrelateObject) ... ok test_rank3 (test_signaltools.TestCorrelateObject) ... ok test_rank1 (test_signaltools.TestCorrelateSingle) ... ok test_rank3 (test_signaltools.TestCorrelateSingle) ... ok test_signaltools.TestDecimate.test_basic ...
crash
On Mon, Oct 19, 2009 at 10:40 AM, josef.pktd@gmail.com wrote:
I wanted to finally upgrade my numpy, so I can build scipy trunk again, but I get test failures with numpy. And running the tests of the previously compiled version of scipy crashes in signaltools.
Is this a problem with my build (the usual official MingW on WindowsXP), or are there still ABI problems in numpy trunk? I did the build twice with (I think) clean directories and get the same result.
Thanks,
Josef
Forgot to mention my previous version of scipy was build against numpy release 1.3.0
I recompiled scipy, and have no problems building and running scipy trunk against numpy trunk.
One problem I had, was that during the build of scipy, gcc failed with unknown npymath. I had to copy the file libnpymath.a to my Python libs directory, then the build finished without problems.
Josef
On Oct 19, 2009, at 10:40 AM, josef.pktd@gmail.com wrote:
I wanted to finally upgrade my numpy, so I can build scipy trunk again, but I get test failures with numpy. And running the tests of the previously compiled version of scipy crashes in signaltools.
The ConversionWarnings are expected. I'm probably to be blamed for the AttributeErrors (I'm testing on 2.6 where tuples do have an index Attribute), I gonna check that.
I had the same 4 errors in genfromtext yesterday when I upgraded numpy r 7539. mac os x python 2.5.2.
--George.
2009/10/19 Pierre GM pgmdevlist@gmail.com:
On Oct 19, 2009, at 10:40 AM, josef.pktd@gmail.com wrote:
I wanted to finally upgrade my numpy, so I can build scipy trunk again, but I get test failures with numpy. And running the tests of the previously compiled version of scipy crashes in signaltools.
The ConversionWarnings are expected. I'm probably to be blamed for the AttributeErrors (I'm testing on 2.6 where tuples do have an index Attribute), I gonna check that. _______________________________________________ NumPy-Discussion mailing list NumPy-Discussion@scipy.org http://mail.scipy.org/mailman/listinfo/numpy-discussion
On Oct 19, 2009, at 12:01 PM, George Nurser wrote:
I had the same 4 errors in genfromtext yesterday when I upgraded numpy r 7539. mac os x python 2.5.2.
I'm on it, should be fixed in a few hours. Please, don't hesitate to open a ticket next time (so that I remember to test on 2.5 as well...). Thx
-
George Nurser -
josef.pktd＠gmail.com -
Pierre GM