[AstroPy] errors returned by astropy.test()

José Vinícius josevinicius at iecom.org.br
Sun Jul 5 18:35:21 EDT 2015


Erik,

With numpy 1.9.2, it's working just fine.

Thanks!

Ze.

Skype: joseviniciusmirca (feel free to call me)
CVLattes: http://lattes.cnpq.br/3267230342393209

On Sun, Jul 5, 2015 at 12:01 PM, Erik Bray <embray at stsci.edu> wrote:

> Hi,
>
> You seem to have a pre-release version of Numpy for some
> reason--specifically
> Numpy 1.8.0rc1.  So some code that works around issues with Numpy versions
> less
> than 1.8.0 is behaving awkwardly, since 1.8.0rc1 is technically less than
> 1.8.0
> (granted, those checks should probably ignore pre-release specifiers).
>
> In other words, upgrade your Numpy to a released version and it should be
> fine.
>
> Erik
>
> On 07/05/2015 11:42 AM, José Vinícius wrote:
> > Hi guys!
> >
> > I'm trying to install the developer's version of astropy, and after using
> >  >> import astropy
> >  >> astropy.test()
> > I'm receiving several errors: *= 9 failed, 9053 passed, 170 skipped, 43
> xfailed,
> > 2 xpassed in 284.03 seconds == *1
> >
> > The log of failures is as follows
> >
> > =================================== FAILURES
> ===================================
> >
> > _______________________ test_getitem_metadata_regression
> _______________________
> >
> >
> > *    def test_getitem_metadata_regression():*
> >
> > *        """*
> >
> > *        Regression test for #1471: MaskedArray does not call
> __array_finalize__ so*
> >
> > *        the meta-data was not getting copied over. By overloading
> _update_from we*
> >
> > *        are able to work around this bug.*
> >
> > *        """*
> >
> > **
> >
> > *        # Make sure that meta-data gets propagated with __getitem__*
> >
> > **
> >
> > *        c = table.Column(data=[1,2], name='a', description='b',
> unit='m',
> > format="%i", meta={'c': 8})*
> >
> > *        assert c[1:2].name == 'a'*
> >
> > *        assert c[1:2].description == 'b'*
> >
> > *        assert c[1:2].unit == 'm'*
> >
> > *        assert c[1:2].format == '%i'*
> >
> > *        assert c[1:2].meta['c'] == 8*
> >
> > **
> >
> > *        c = table.MaskedColumn(data=[1,2], name='a', description='b',
> unit='m',
> > format="%i", meta={'c': 8})*
> >
> > *        assert c[1:2].name == 'a'*
> >
> > *        assert c[1:2].description == 'b'*
> >
> > *        assert c[1:2].unit == 'm'*
> >
> > *        assert c[1:2].format == '%i'*
> >
> > *        assert c[1:2].meta['c'] == 8*
> >
> > **
> >
> > *        # As above, but with take() - check the method and the function*
> >
> > **
> >
> > *        c = table.Column(data=[1,2,3], name='a', description='b',
> unit='m',
> > format="%i", meta={'c': 8})*
> >
> > *        for subset in [c.take([0, 1]), np.take(c, [0, 1])]:*
> >
> > *            assert subset.name <http://subset.name> == 'a'*
> >
> > *            assert subset.description == 'b'*
> >
> > *            assert subset.unit == 'm'*
> >
> > *            assert subset.format == '%i'*
> >
> > *            assert subset.meta['c'] == 8*
> >
> > **
> >
> > *        # Metadata isn't copied for scalar values*
> >
> > *        if NUMPY_LT_1_8:*
> >
> > *            with pytest.raises(ValueError):*
> >
> > *>               c.take(0)*
> >
> > *E               Failed: DID NOT RAISE*
> >
> >
> > astropy/table/tests/test_column.py:467: Failed
> >
> > _______________________ test_getitem_metadata_regression
> _______________________
> >
> >
> > *    def test_getitem_metadata_regression():*
> >
> > *        """*
> >
> > *        Regression test for #1471: MaskedArray does not call
> __array_finalize__ so*
> >
> > *        the meta-data was not getting copied over. By overloading
> _update_from we*
> >
> > *        are able to work around this bug.*
> >
> > *        """*
> >
> > **
> >
> > *        # Make sure that meta-data gets propagated with __getitem__*
> >
> > **
> >
> > *        c = table.Column(data=[1,2], name='a', description='b',
> unit='m',
> > format="%i", meta={'c': 8})*
> >
> > *        assert c[1:2].name == 'a'*
> >
> > *        assert c[1:2].description == 'b'*
> >
> > *        assert c[1:2].unit == 'm'*
> >
> > *        assert c[1:2].format == '%i'*
> >
> > *        assert c[1:2].meta['c'] == 8*
> >
> > **
> >
> > *        c = table.MaskedColumn(data=[1,2], name='a', description='b',
> unit='m',
> > format="%i", meta={'c': 8})*
> >
> > *        assert c[1:2].name == 'a'*
> >
> > *        assert c[1:2].description == 'b'*
> >
> > *        assert c[1:2].unit == 'm'*
> >
> > *        assert c[1:2].format == '%i'*
> >
> > *        assert c[1:2].meta['c'] == 8*
> >
> > **
> >
> > *        # As above, but with take() - check the method and the function*
> >
> > **
> >
> > *        c = table.Column(data=[1,2,3], name='a', description='b',
> unit='m',
> > format="%i", meta={'c': 8})*
> >
> > *        for subset in [c.take([0, 1]), np.take(c, [0, 1])]:*
> >
> > *            assert subset.name <http://subset.name> == 'a'*
> >
> > *            assert subset.description == 'b'*
> >
> > *            assert subset.unit == 'm'*
> >
> > *            assert subset.format == '%i'*
> >
> > *            assert subset.meta['c'] == 8*
> >
> > **
> >
> > *        # Metadata isn't copied for scalar values*
> >
> > *        if NUMPY_LT_1_8:*
> >
> > *            with pytest.raises(ValueError):*
> >
> > *>               c.take(0)*
> >
> > *E               Failed: DID NOT RAISE*
> >
> >
> > astropy/table/tests/test_column.py:467: Failed
> >
> > _______________________ test_masked_row_with_object_col
> ________________________
> >
> >
> > *    def test_masked_row_with_object_col():*
> >
> > *        """*
> >
> > *        Numpy < 1.8 has a bug in masked array that prevents access a
> row if
> > there is*
> >
> > *        a column with object type.*
> >
> > *        """*
> >
> > *        t = table.Table([[1]], dtype=['O'], masked=True)*
> >
> > *        if NUMPY_LT_1_8:*
> >
> > *            with pytest.raises(ValueError):*
> >
> > *                t['col0'].mask = False*
> >
> > *>               t[0].as_void()*
> >
> > *E               Failed: DID NOT RAISE*
> >
> >
> > astropy/table/tests/test_row.py:26: Failed
> >
> > ______________ TestRow.test_row_and_as_void_with_objects[masked]
> _______________
> >
> >
> > self = <astropy.table.tests.test_row.TestRow instance at 0x108ed2ab8>
> >
> > table_types = <astropy.table.tests.conftest.TableTypes instance at
> 0x108ed2368>
> >
> >
> > *    def test_row_and_as_void_with_objects(self, table_types):*
> >
> > *        """Test the deprecated data property and as_void() method"""*
> >
> > *        t = table_types.Table([[{'a': 1}, {'b': 2}]], names=('a',))*
> >
> > *        assert t[0][0] == {'a': 1}*
> >
> > *        assert t[0]['a'] == {'a': 1}*
> >
> > *        if NUMPY_LT_1_8 and t.masked:*
> >
> > *            # With numpy < 1.8 there is a bug setting mvoid with*
> >
> > *            # an object.*
> >
> > *            with pytest.raises(ValueError):*
> >
> > *>               t[0].as_void()*
> >
> > *E               Failed: DID NOT RAISE*
> >
> >
> > astropy/table/tests/test_row.py:197: Failed
> >
> > _______________________ test_masked_row_with_object_col
> ________________________
> >
> >
> > *    def test_masked_row_with_object_col():*
> >
> > *        """*
> >
> > *        Numpy < 1.8 has a bug in masked array that prevents access a
> row if
> > there is*
> >
> > *        a column with object type.*
> >
> > *        """*
> >
> > *        t = table.Table([[1]], dtype=['O'], masked=True)*
> >
> > *        if NUMPY_LT_1_8:*
> >
> > *            with pytest.raises(ValueError):*
> >
> > *                t['col0'].mask = False*
> >
> > *>               t[0].as_void()*
> >
> > *E               Failed: DID NOT RAISE*
> >
> >
> > astropy/table/tests/test_row.py:26: Failed
> >
> > ______________ TestRow.test_row_and_as_void_with_objects[masked]
> _______________
> >
> >
> > self = <astropy.table.tests.test_row.TestRow instance at 0x10928e128>
> >
> > table_types = <astropy.table.tests.conftest.TableTypes instance at
> 0x105bae128>
> >
> >
> > *    def test_row_and_as_void_with_objects(self, table_types):*
> >
> > *        """Test the deprecated data property and as_void() method"""*
> >
> > *        t = table_types.Table([[{'a': 1}, {'b': 2}]], names=('a',))*
> >
> > *        assert t[0][0] == {'a': 1}*
> >
> > *        assert t[0]['a'] == {'a': 1}*
> >
> > *        if NUMPY_LT_1_8 and t.masked:*
> >
> > *            # With numpy < 1.8 there is a bug setting mvoid with*
> >
> > *            # an object.*
> >
> > *            with pytest.raises(ValueError):*
> >
> > *>               t[0].as_void()*
> >
> > *E               Failed: DID NOT RAISE*
> >
> >
> > astropy/table/tests/test_row.py:197: Failed
> >
> > _________________________ test_repr_array_of_quantity
> __________________________
> >
> >
> > *    def test_repr_array_of_quantity():*
> >
> > *        """*
> >
> > *        Test print/repr of object arrays of Quantity objects with
> different*
> >
> > *        units.*
> >
> > **
> >
> > *        Regression test for the issue first reported in*
> >
> > *https://github.com/astropy/astropy/issues/3777*
> >
> > *        """*
> >
> > **
> >
> > *        a = np.array([1 * u.m, 2 * u.s], dtype=object)*
> >
> > *        if NUMPY_LT_1_7:*
> >
> > *            # Numpy 1.6.x has some different defaults for how to
> display object*
> >
> > *            # arrays (it uses the str() of the objects instead of the
> repr()*
> >
> > *            assert repr(a) == 'array([1.0 m, 2.0 s], dtype=object)'*
> >
> > *            assert str(a) == '[1.0 m 2.0 s]'*
> >
> > *        else:*
> >
> > *>           assert repr(a) == 'array([<Quantity 1.0 m>, <Quantity 2.0
> s>],
> > dtype=object)'*
> >
> > *E           assert 'array([1.0, ...dtype=object)' ==
> > 'array([<Quant...dtype=object)'*
> >
> > *E             - array([1.0, 2.0], dtype=object)*
> >
> > *E             + array([<Quantity 1.0 m>, <Quantity 2.0 s>],
> dtype=object)*
> >
> >
> > astropy/units/tests/test_quantity.py:1180: AssertionError
> >
> > ______________________ TestQuantityStatsFuncs.test_median
> ______________________
> >
> >
> > self =
> <astropy.units.tests.test_quantity_array_methods.TestQuantityStatsFuncs
> > object at 0x109b710d0>
> >
> >
> > *    def test_median(self):*
> >
> > *        q1 = np.array([1., 2., 4., 5., 6.]) * u.m*
> >
> > *>       assert np.median(q1) == 4. * u.m*
> >
> > *E       assert 4.0 == (4.0 * Unit("m"))*
> >
> > *E        +  where 4.0 = <function median at 0x1027548c0>(<Quantity [
> 1., 2.,
> > 4., 5., 6.] m>)*
> >
> > *E        +    where <function median at 0x1027548c0> = np.median*
> >
> > *E        +  and   Unit("m") = u.m*
> >
> >
> > astropy/units/tests/test_quantity_array_methods.py:178: AssertionError
> >
> > __________________ TestQuantityStatsFuncs.test_median_inplace
> __________________
> >
> >
> > self =
> <astropy.units.tests.test_quantity_array_methods.TestQuantityStatsFuncs
> > object at 0x109b7c2d0>
> >
> >
> > *    def test_median_inplace(self):*
> >
> > *        q1 = np.array([1., 2., 4., 5., 6.]) * u.m*
> >
> > *        qi = 1.5 * u.s*
> >
> > *        np.median(q1, out=qi)*
> >
> > *>       assert qi == 4 * u.m*
> >
> > *E       assert <Quantity 4.0 s> == (4 * Unit("m"))*
> >
> > *E        +  where Unit("m") = u.m*
> >
> >
> > astropy/units/tests/test_quantity_array_methods.py:184: AssertionError
> >
> > *= 9 failed, 9053 passed, 170 skipped, 43 xfailed, 2 xpassed in 284.03
> seconds ==*
> >
> > 1
> >
> >
> > Does anybody know what might be causing these errors? Is there anything
> to be
> > concerned with?
> >
> > Thank you in advance.
> >
> > Astropy 1.1.dev12835
> > Darwin-14.3.0 - 64bit
> > Python 2.7.6
> > Numpy 1.8.0rc1
> > Scipy 0.13.0b1
> > Matplotlib 1.3.1
> > h5py 2.5.0
> > CVLattes: http://lattes.cnpq.br/3267230342393209
> >
> >
> > _______________________________________________
> > AstroPy mailing list
> > AstroPy at scipy.org
> > http://mail.scipy.org/mailman/listinfo/astropy
> >
>
> _______________________________________________
> AstroPy mailing list
> AstroPy at scipy.org
> http://mail.scipy.org/mailman/listinfo/astropy
>
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