Thanks a lot Andy. I thought I had upgraded to 0.13.1. I started a separate
thread since it looks like I am unable to upgrade to 0.13.1.
Jacob
On Tue, Jul 2, 2013 at 5:57 PM, Andreas Mueller <[email protected]>wrote:
> 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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