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
.............................................................../home/jacob04/opt/python/virtualenvs/work/lib/python2.7/site-packages/sklearn/manifold/spect
ral_embedding.py:225: UserWarning: Graph is not fully connected, spectral embedding may not works as expected.
warnings.warn("Graph is not fully connected, spectral embedding"
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..........................SSSF...................../home/jacob04/opt/python/virtualenvs/work/lib/python2.7/site-packages/sklearn/externals/joblib/test/test
_func_inspect.py:122: UserWarning: Cannot inspect object <functools.partial object at 0x130fd7e0>, ignore list will not work.
nose.tools.assert_equal(filter_args(ff, ['y'], (1, )),
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ERROR: sklearn.tests.test_pls.test_scale
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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/sklearn/tests/test_pls.py", line 235, in test_scale
clf.fit(X, Y)
File "/home/jacob04/opt/python/virtualenvs/work/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
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FAIL: sklearn.externals.joblib.test.test_disk.test_disk_used
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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/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
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Ran 1603 tests in 102.191s
FAILED (SKIP=14, errors=1, failures=1)
Here is the result of pip freeze:
$ 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==0.0.5
ipython==0.13.2
jedi==0.6.0
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==0.13.1
scipy==0.12.0
sexpdata==0.0.3
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. Why am I getting these errors and how can I fix them?