Hi Josh.
Are you sure this is 0.13.1 as your subject says?
The errors look like 0.13 to me and that is also what pip freeze says.
There were some issues with the 0.13 release, which is why we did 0.13.1.
Cheers,
Andy
On 07/02/2013 11:52 PM, Josh Wasserstein wrote:
Hi,
When running `nosetests sklearn --exe` with the latest version of
`sklearn`, I run into three errors, and I can't figure out where they
come from:
$ nosetests sklearn --exe 1
.............................................................../home/jacob04/.my_python_packages/lib/python2.7/site-packages/sklearn/manifold/spectral_embe
dding.py:225: UserWarning: Graph is not fully connected, spectral
embedding may not works as expected.
warnings.warn("Graph is not fully connected, spectral embedding"
...........SS....................................................................S.........................................................S................
.........................SSSF...................../home/jacob04/.my_python_packages/lib/python2.7/site-packages/sklearn/externals/joblib/test/test_func_ins
pect.py:122: UserWarning: Cannot inspect object <functools.partial
object at 0x10add730>, ignore list will not work.
nose.tools.assert_equal(filter_args(ff, ['y'], (1, )),
............................................................................................................................................................
............................................................................................................................................................
.............................................................S..............................................................................................
............................................................................................................................................................
............................................................................................................................................................
..........................................................................E.......................................................................SSS....S..
..S..................................................................................E...............................................
======================================================================
ERROR: Split arrays or matrices into random train and test subsets
----------------------------------------------------------------------
Traceback (most recent call last):
File
"/home/jacob04/opt/python/virtualenvs/work/lib/python2.7/site-packages/nose/case.py",
line 197, in runTest
self.test(*self.arg)
File
"/home/jacob04/opt/python/virtualenvs/work/lib/python2.7/site-packages/nose/util.py",
line 613, in newfunc
return func(*arg, **kw)
File
"/home/jacob04/.my_python_packages/lib/python2.7/site-packages/sklearn/cross_validation.py",
line 1349, in train_test_split
raise ValueError("At least one array required as input")
ValueError: At least one array required as input
======================================================================
ERROR: sklearn.tests.test_pls.test_scale
----------------------------------------------------------------------
Traceback (most recent call last):
File
"/home/jacob04/opt/python/virtualenvs/work/lib/python2.7/site-packages/nose/case.py",
line 197, in runTest
self.test(*self.arg)
File
"/home/jacob04/.my_python_packages/lib/python2.7/site-packages/sklearn/tests/test_pls.py",
line 235, in test_scale
clf.fit(X, Y)
File
"/home/jacob04/.my_python_packages/lib/python2.7/site-packages/sklearn/pls.py",
line 320, in fit
linalg.inv(np.dot(self.x_loadings_.T, self.x_weights_)))
File
"/home/jacob04/opt/python/scipy/scipy-0.12.0/lib/python2.7/site-packages/scipy/linalg/basic.py",
line 380, in inv
raise LinAlgError("singular matrix")
LinAlgError: singular matrix
======================================================================
FAIL: sklearn.externals.joblib.test.test_disk.test_disk_used
----------------------------------------------------------------------
Traceback (most recent call last):
File
"/home/jacob04/opt/python/virtualenvs/work/lib/python2.7/site-packages/nose/case.py",
line 197, in runTest
self.test(*self.arg)
File
"/home/jacob04/.my_python_packages/lib/python2.7/site-packages/sklearn/externals/joblib/test/test_disk.py",
line 41, in test_disk_used
nose.tools.assert_true(disk_used(cachedir) < target_size + 12)
AssertionError: False is not true
----------------------------------------------------------------------
Ran 1338 tests in 89.752s
FAILED (SKIP=13, errors=2, failures=1)
Here is the result of `pip freeze`:
Cython==0.19.1
PIL==1.1.7
PyXB==1.2.2
PyYAML==3.10
argparse==1.2.1
distribute==0.6.34
epc==0.0.3
ipython==0.13.2
jedi==0.5b5
matplotlib==1.3.x
nltk==2.0.4
nose==1.3.0
numexpr==2.1
numpy==1.7.1
pandas==0.11.0
pyparsing==1.5.7
python-dateutil==2.1
pytz==2013b
rpy2==2.3.1
scikit-learn==0.13
scipy==0.12.0
sexpdata==0.0.2
six==1.3.0
stemming==1.0.1
-e
git+https://github.com/PyTables/PyTables.git@df7b20444b0737cf34686b5d88b4e674ec85575b#egg=tables-dev
tornado==3.0.1
wsgiref==0.1.2
This is all with `Python 2.7.4` on a full local (rootless)
installation through pip. Anyone knows why I am getting these errors
and how can I fix them?
Thanks!
Jacob
PS: Note: I have left a copy of this question also in StackOverflow:
http://stackoverflow.com/questions/17435772/tracing-errors-in-sklearn-tests
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