While most bugs and issues are managed using the astropy issue tracker, this document lists issues that are too difficult to fix, may require some intervention from the user to work around, or are caused by bugs in other projects or packages.
Issues listed on this page are grouped into two categories: The first is known
issues and shortcomings in actual algorithms and interfaces that currently do
not have fixes or workarounds, and that users should be aware of when writing
code that uses
astropy. Some of those issues are still platform-specific,
while others are very general. The second category is of common issues that come
up when configuring, building, or installing
astropy. This also includes
cases where the test suite can report false negatives depending on the context/
platform on which it was run.
Quantities are subclassed from NumPy’s
ndarray and in some NumPy
operations (and in SciPy operations using NumPy internally) the subclass is
ignored, which means that either a plain array is returned, or a
Quantity without units.
E.g., prior to astropy 4.0 and numpy 1.17:
>>> import astropy.units as u >>> import numpy as np >>> q = u.Quantity(np.arange(10.), u.m) >>> np.dot(q,q) 285.0 >>> np.hstack((q,q)) <Quantity [0., 1., 2., 3., 4., 5., 6., 7., 8., 9., 0., 1., 2., 3., 4., 5., 6., 7., 8., 9.] (Unit not initialised)>
And for all versions:
>>> ratio = (3600 * u.s) / (1 * u.h) >>> ratio <Quantity 3600. s / h> >>> np.array(ratio) array(3600.) >>> np.array([ratio]) array([1.])
Workarounds are available for some cases. For the above:
>>> q.dot(q) <Quantity 285. m2> >>> np.array(ratio.to(u.dimensionless_unscaled)) array(1.) >>> u.Quantity([q, q]).flatten() <Quantity [0., 1., 2., 3., 4., 5., 6., 7., 8., 9., 0., 1., 2., 3., 4., 5., 6., 7., 8., 9.] m>
An incomplete list of specific functions which are known to exhibit this behavior (prior to astropy 4.0 and numpy 1.17) follows:
Care must be taken when setting array slices using Quantities:
>>> a = np.ones(4) >>> a[2:3] = 2*u.kg >>> a array([1., 1., 2., 1.])
>>> a = np.ones(4) >>> a[2:3] = 1*u.cm/u.m >>> a array([1., 1., 1., 1.])
Either set single array entries or use lists of Quantities:
>>> a = np.ones(4) >>> a = 1*u.cm/u.m >>> a array([1. , 1. , 0.01, 1. ])
>>> a = np.ones(4) >>> a[2:3] = [1*u.cm/u.m] >>> a array([1. , 1. , 0.01, 1. ])
Both will throw an exception if units do not cancel, e.g.:
>>> a = np.ones(4) >>> a = 1*u.cm Traceback (most recent call last): ... TypeError: only dimensionless scalar quantities can be converted to Python scalars
>>> q = u.Quantity(np.arange(10.), u.m) >>> b = np.broadcast_to(q, (2, len(q))) >>> b array([[0., 1., 2., 3., 4., 5., 6., 7., 8., 9.], [0., 1., 2., 3., 4., 5., 6., 7., 8., 9.]]) >>> b2 = np.broadcast_to(q, (2, len(q)), subok=True) >>> b2 <Quantity [[0., 1., 2., 3., 4., 5., 6., 7., 8., 9.], [0., 1., 2., 3., 4., 5., 6., 7., 8., 9.]] m>
This is analogous to the case of passing a Quantity to
>>> a = np.array(q) >>> a array([0., 1., 2., 3., 4., 5., 6., 7., 8., 9.]) >>> a2 = np.array(q, subok=True) >>> a2 <Quantity [0., 1., 2., 3., 4., 5., 6., 7., 8., 9.] m>
Comparing Quantities floats using the NumPy function
isclose fails on
NumPy versions before 1.17 as the comparison between
is made using the formula
This will result in the following traceback when using this with Quantities:
>>> from astropy import units as u, constants as const >>> import numpy as np >>> np.isclose(500 * u.km/u.s, 300 * u.km / u.s) Traceback (most recent call last): ... UnitConversionError: Can only apply 'add' function to dimensionless quantities when other argument is not a quantity (unless the latter is all zero/infinity/nan)
If one cannot upgrade to numpy 1.17 or later, one solution is:
>>> np.isclose(500 * u.km/u.s, 300 * u.km / u.s, atol=1e-8 * u.mm / u.s) False
linspace does not work correctly with quantities when using NumPy
1.10.0 to 1.10.5 due to a bug in NumPy. The solution is to upgrade to NumPy
1.10.6 or later, in which the bug was fixed.
On Hurd and possibly other platforms,
flush() on memory-mapped files are not
implemented, so writing changes to a mmap’d FITS file may not be reliable and is
thus disabled. Attempting to open a FITS file in writeable mode with mmap will
result in a warning (and mmap will be disabled on the file automatically).
On big endian processors (e.g. SPARC, PowerPC, MIPS), string columns in FITS
files may not be correctly read when using the
Table.read interface. This
will be fixed in a subsequent bug fix release of
astropy (see bug report here).
Colored printing of log messages and other colored text does work in Windows, but only when running in the IPython console. Colors are not currently supported in the basic Python command-line interpreter on Windows.
int() goes through
numpy.int_ do not go through
means that an upstream fix in
numpy` is required in order for
``astropy.units to control decomposing the input in these functions:
>>> np.int64((15 * u.km) / (15 * u.imperial.foot)) 1 >>> np.int_((15 * u.km) / (15 * u.imperial.foot)) 1 >>> int((15 * u.km) / (15 * u.imperial.foot)) 3280
To convert a dimensionless
Quantity to an integer, it is
therefore recommended to use
Attempting to use
float or NumPy’s
numpy.float on a standard
complex number (e.g.,
5 + 6j) results in a
numpy.float on a complex number from
numpy.complex128) drops the imaginary component and
numpy.ComplexWarning. This inconsistency persists between
Quantity instances based on standard and NumPy
complex numbers. To get the real part of a complex number, it is
recommended to use
astropy in the Anaconda Python distribution using
pip can result
in a corrupted install with a mix of files from the old version and the new
version. Anaconda users should update with
conda update astropy. There
may be a brief delay between the release of
astropy on PyPI and its release
conda package manager; users can check the availability of new
conda search astropy.
On MacOS X, you may see the following error when running
... ValueError: unknown locale: UTF-8
This is due to the
LC_CTYPE environment variable being incorrectly set to
UTF-8 by default, which is not a valid locale setting.
On MacOS X or Linux (or other platforms) you may also encounter the following error:
... stderr = stderr.decode(stdio_encoding) TypeError: decode() argument 1 must be str, not None
This also indicates that your locale is not set correctly.
To fix either of these issues, set this environment variable, as well as the
LC_ALL environment variables to e.g.
en_US.UTF-8 using, in
the case of
export LANG="en_US.UTF-8" export LC_ALL="en_US.UTF-8" export LC_CTYPE="en_US.UTF-8"
To avoid any issues in future, you should add this line to your e.g.
To test these changes, open a new terminal and type
locale, and you should
see something like:
$ locale LANG="en_US.UTF-8" LC_COLLATE="en_US.UTF-8" LC_CTYPE="en_US.UTF-8" LC_MESSAGES="en_US.UTF-8" LC_MONETARY="en_US.UTF-8" LC_NUMERIC="en_US.UTF-8" LC_TIME="en_US.UTF-8" LC_ALL="en_US.UTF-8"
If so, you can go ahead and try running
setup.py again (in the new
When running the Astropy tests using
astropy.test() in an IPython
interpreter, some of the tests in the
fail depending on the version of IPython or other factors.
This is due to mutually incompatible behaviors in IPython and py.test, and is
not due to a problem with the test itself or the feature being tested.
Displaying long docstrings that contain Unicode characters may fail on some platforms in the IPython console (prior to IPython version 0.13.2):
In : import astropy.units as u In : u.Angstrom? Out: ERROR: UnicodeEncodeError: 'ascii' codec can't encode character u'\xe5' in position 184: ordinal not in range(128) [IPython.core.page]
This can be worked around by changing the default encoding to
by adding the following to your
import sys sys.setdefaultencoding('utf-8')
Note that in general, this is not recommended, because it can hide other Unicode encoding bugs in your application. However, if your application does not deal with text processing and you just want docstrings to work, this may be acceptable.
The IPython issue: https://github.com/ipython/ipython/pull/2738
Due to a bug in pytest related to test collection,
the tests for the core
astropy package for version 2.0.x (LTS), and for
packages using the core package’s test infrastructure and being tested against
2.0.x (LTS), will not be executed correctly with pytest 3.7, 3.8, or 3.9. The
symptom of this bug is that no tests or only tests in RST files are collected.
astropy 2.0.x (LTS) is not compatible with pytest 4.0 and above,
as in this case deprecation errors from pytest can cause tests to fail.
Therefore, when testing against
astropy v2.0.x (LTS), pytest 3.6 or earlier
versions should be used. These issues do not occur in version 3.0.x and above of
the core package.
There is an unrelated issue that also affects more recent versions of
astropy when testing with pytest 4.0 and later, which can
cause issues when collecting tests — in this case, the symptom is that the
test collection hangs and/or appears to run the tests recursively. If you are
maintaining a package that was created using the Astropy
package template, then
this can be fixed by updating to the latest version of the
file. The root cause of this issue is that pytest now tries to pick up the
test() function as a test, so we need to make sure that we set a
test.__test__ attribute on the function to