./math/py-xarray, N-D labeled arrays and datasets in Python

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Branch: CURRENT, Version: 2024.9.0, Package name: py312-xarray-2024.9.0, Maintainer: jihbed.research

xarray (formerly xray) is an open source project and Python package
that aims to bring the labeled data power of pandas to the physical
sciences, by providing N-dimensional variants of the core pandas data
structures.


Required to run:
[devel/py-setuptools] [math/py-numpy] [math/py-pandas] [lang/python37]

Required to build:
[devel/py-pip] [pkgtools/cwrappers] [devel/py-setuptools_scm]

Master sites:

Filesize: 3659.602 KB

Version history: (Expand)


CVS history: (Expand)


   2024-04-03 09:29:09 by Adam Ciarcinski | Files touched by this commit (3) | Package updated
Log message:
py-xarray: updated to 2024.3.0

v2024.03.0 (Mar 29, 2024)

This release brings performance improvements for grouped and resampled quantile \ 
calculations, CF decoding improvements,
minor optimizations to distributed Zarr writes, and compatibility fixes for \ 
Numpy 2.0 and Pandas 3.0.
   2024-02-19 19:25:04 by Adam Ciarcinski | Files touched by this commit (3) | Package updated
Log message:
py-xarray: updated to 2024.2.0

v2024.02.0 (Feb 19, 2024)
-------------------------

This release brings size information to the text ``repr``, changes to the \ 
accepted frequency
strings, and various bug fixes.

Thanks to our 12 contributors:

Anderson Banihirwe, Deepak Cherian, Eivind Jahren, Etienne Schalk, Justus Magin, \ 
Marco Wolsza,
Mathias Hauser, Matt Savoie, Maximilian Roos, Rambaud Pierrick, Tom Nicholas

New Features
~~~~~~~~~~~~

- Added a simple ``nbytes`` representation in DataArrays and Dataset ``repr``.
  (:issue:`8690`, :pull:`8702`).
  By `Etienne Schalk <https://github.com/etienneschalk>`_.
- Allow negative frequency strings (e.g. ``"-1YE"``). These strings \ 
are for example used in
  :py:func:`date_range`, and :py:func:`cftime_range` (:pull:`8651`).
  By `Mathias Hauser <https://github.com/mathause>`_.
- Add :py:meth:`NamedArray.expand_dims`, :py:meth:`NamedArray.permute_dims` and
  :py:meth:`NamedArray.broadcast_to` (:pull:`8380`)
  By `Anderson Banihirwe <https://github.com/andersy005>`_.
- Xarray now defers to `flox's heuristics \ 
<https://flox.readthedocs.io/en/latest/implementation.html#heuristics>`_
  to set the default `method` for groupby problems. This only applies to \ 
``flox>=0.9``.
  By `Deepak Cherian <https://github.com/dcherian>`_.
- All `quantile` methods (e.g. :py:meth:`DataArray.quantile`) now use `numbagg`
  for the calculation of nanquantiles (i.e., `skipna=True`) if it is installed.
  This is currently limited to the linear interpolation method (`method='linear'`).
  (:issue:`7377`, :pull:`8684`)
  By `Marco Wolsza <https://github.com/maawoo>`_.

Breaking changes
~~~~~~~~~~~~~~~~

- :py:func:`infer_freq` always returns the frequency strings as defined in pandas 2.2
  (:issue:`8612`, :pull:`8627`).
  By `Mathias Hauser <https://github.com/mathause>`_.

Deprecations
~~~~~~~~~~~~
- The `dt.weekday_name` parameter wasn't functional on modern pandas versions \ 
and has been
  removed. (:issue:`8610`, :pull:`8664`)
  By `Sam Coleman <https://github.com/nameloCmaS>`_.

Bug fixes
~~~~~~~~~

- Fixed a regression that prevented multi-index level coordinates being \ 
serialized after resetting
  or dropping the multi-index (:issue:`8628`, :pull:`8672`).
  By `Benoit Bovy <https://github.com/benbovy>`_.
- Fix bug with broadcasting when wrapping array API-compliant classes. \ 
(:issue:`8665`, :pull:`8669`)
  By `Tom Nicholas <https://github.com/TomNicholas>`_.
- Ensure :py:meth:`DataArray.unstack` works when wrapping array API-compliant
  classes. (:issue:`8666`, :pull:`8668`)
  By `Tom Nicholas <https://github.com/TomNicholas>`_.
- Fix negative slicing of Zarr arrays without dask installed. (:issue:`8252`)
  By `Deepak Cherian <https://github.com/dcherian>`_.
- Preserve chunks when writing time-like variables to zarr by enabling lazy CF \ 
encoding of time-like
  variables (:issue:`7132`, :issue:`8230`, :issue:`8432`, :pull:`8575`).
  By `Spencer Clark <https://github.com/spencerkclark>`_ and `Mattia \ 
Almansi <https://github.com/malmans2>`_.
- Preserve chunks when writing time-like variables to zarr by enabling their \ 
lazy encoding
  (:issue:`7132`, :issue:`8230`, :issue:`8432`, :pull:`8253`, :pull:`8575`; see \ 
also discussion in
  :pull:`8253`).
  By `Spencer Clark <https://github.com/spencerkclark>`_ and `Mattia \ 
Almansi <https://github.com/malmans2>`_.
- Raise an informative error if dtype encoding of time-like variables would lead \ 
to integer overflow
  or unsafe conversion from floating point to integer values (:issue:`8542`, \ 
:pull:`8575`).
  By `Spencer Clark <https://github.com/spencerkclark>`_.
- Raise an error when unstacking a MultiIndex that has duplicates as this would \ 
lead to silent data
  loss (:issue:`7104`, :pull:`8737`).
  By `Mathias Hauser <https://github.com/mathause>`_.

Documentation
~~~~~~~~~~~~~
- Fix `variables` arg typo in `Dataset.sortby()` docstring (:issue:`8663`, \ 
:pull:`8670`)
  By `Tom Vo <https://github.com/tomvothecoder>`_.
- Fixed documentation where the use of the depreciated pandas frequency string \ 
prevented the
  documentation from being built. (:pull:`8638`)
  By `Sam Coleman <https://github.com/nameloCmaS>`_.

Internal Changes
~~~~~~~~~~~~~~~~

- ``DataArray.dt`` now raises an ``AttributeError`` rather than a ``TypeError`` \ 
when the data isn't
  datetime-like. (:issue:`8718`, :pull:`8724`)
  By `Maximilian Roos <https://github.com/max-sixty>`_.
- Move ``parallelcompat`` and ``chunk managers`` modules from ``xarray/core`` to
  ``xarray/namedarray``. (:pull:`8319`)
  By `Tom Nicholas <https://github.com/TomNicholas>`_ and `Anderson \ 
Banihirwe <https://github.com/andersy005>`_.
- Imports ``datatree`` repository and history into internal location. (:pull:`8688`)
  By `Matt Savoie <https://github.com/flamingbear>`_ and `Justus Magin \ 
<https://github.com/keewis>`_.
- Adds :py:func:`open_datatree` into ``xarray/backends`` (:pull:`8697`)
  By `Matt Savoie <https://github.com/flamingbear>`_.
- Refactor :py:meth:`xarray.core.indexing.DaskIndexingAdapter.__getitem__` to \ 
remove an unnecessary
  rewrite of the indexer key (:issue: `8377`, :pull:`8758`)
   2024-01-24 10:16:58 by Adam Ciarcinski | Files touched by this commit (2) | Package updated
Log message:
py-xarray: updated to 2024.1.1

v2024.01.1 (23 Jan, 2024)

This release is to fix a bug with the rendering of the documentation, but it \ 
also includes changes to the handling of pandas frequency strings.

Breaking changes

- Following pandas, :py:meth:`infer_freq` will return ``"YE"``, \ 
instead of ``"Y"`` (formerly ``"A"``).
  This is to be consistent with the deprecation of the latter frequency string \ 
in pandas 2.2.

Deprecations

- Following pandas, the frequency string ``"Y"`` (formerly \ 
``"A"``) is deprecated in
  favor of ``"YE"``. These strings are used, for example, in \ 
:py:func:`date_range`,
  :py:func:`cftime_range`, :py:meth:`DataArray.resample`, and \ 
:py:meth:`Dataset.resample`
  among others (:issue:`8612`, :pull:`8629`).

Documentation

- Pin ``sphinx-book-theme`` to ``1.0.1`` to fix a rendering issue with the \ 
sidebar in the docs.
   2024-01-20 09:24:55 by Adam Ciarcinski | Files touched by this commit (3) | Package updated
Log message:
py-xarray: updated to 2024.1.0

v2024.01.0 (17 Jan, 2024)
-------------------------

This release brings support for weights in correlation and covariance functions,
a new `DataArray.cumulative` aggregation, improvements to `xr.map_blocks`,
an update to our minimum dependencies, and various bugfixes.

Thanks to our 17 contributors to this release:

Abel Aoun, Deepak Cherian, Illviljan, Johan Mathe, Justus Magin, Kai Mühlbauer,
Llorenç Lledó, Mark Harfouche, Markel, Mathias Hauser, Maximilian Roos, \ 
Michael Niklas,
Niclas Rieger, Sébastien Celles, Tom Nicholas, Trinh Quoc Anh, and crusaderky.

New Features
~~~~~~~~~~~~

- :py:meth:`xr.cov` and :py:meth:`xr.corr` now support using weights \ 
(:issue:`8527`, :pull:`7392`).
  By `Llorenç Lledó <https://github.com/lluritu>`_.
- Accept the compression arguments new in netCDF 1.6.0 in the netCDF4 backend.
  See `netCDF4 documentation \ 
<https://unidata.github.io/netcdf4-python/#efficient-compression-of-netcdf-variables>`_ \ 
for details.
  Note that some new compression filters needs plugins to be installed which may \ 
not be available in all netCDF distributions.
  By `Markel García-Díez <https://github.com/markelg>`_. (:issue:`6929`, \ 
:pull:`7551`)
- Add :py:meth:`DataArray.cumulative` & :py:meth:`Dataset.cumulative` to compute
  cumulative aggregations, such as ``sum``, along a dimension — for example
  ``da.cumulative('time').sum()``. This is similar to pandas' ``.expanding``,
  and mostly equivalent to ``.cumsum`` methods, or to
  :py:meth:`DataArray.rolling` with a window length equal to the dimension size.
  By `Maximilian Roos <https://github.com/max-sixty>`_. (:pull:`8512`)
- Decode/Encode netCDF4 enums and store the enum definition in dataarrays' dtype \ 
metadata.
  If multiple variables share the same enum in netCDF4, each dataarray will have \ 
its own
  enum definition in their respective dtype metadata.
  By `Abel Aoun <https://github.com/bzah>`_. (:issue:`8144`, :pull:`8147`)

Breaking changes
~~~~~~~~~~~~~~~~

- The minimum versions of some dependencies were changed (:pull:`8586`):

  ===================== =========  ========
   Package                    Old      New
  ===================== =========  ========
   cartopy                   0.20      0.21
   dask-core               2022.7   2022.12
   distributed             2022.7   2022.12
   flox                       0.5      0.7
   iris                       3.2      3.4
   matplotlib-base            3.5      3.6
   numpy                     1.22     1.23
   numba                     0.55     0.56
   packaging                 21.3     22.0
   seaborn                   0.11     0.12
   scipy                      1.8     1.10
   typing_extensions          4.3      4.4
   zarr                      2.12     2.13
  ===================== =========  ========

Deprecations
~~~~~~~~~~~~

- The `squeeze` kwarg to GroupBy is now deprecated. (:issue:`2157`, :pull:`8507`)
  By `Deepak Cherian <https://github.com/dcherian>`_.

Bug fixes
~~~~~~~~~

- Support non-string hashable dimensions in :py:class:`xarray.DataArray` \ 
(:issue:`8546`, :pull:`8559`).
  By `Michael Niklas <https://github.com/headtr1ck>`_.
- Reverse index output of bottleneck's rolling move_argmax/move_argmin functions \ 
(:issue:`8541`, :pull:`8552`).
  By `Kai Mühlbauer <https://github.com/kmuehlbauer>`_.
- Vendor `SerializableLock` from dask and use as default lock for netcdf4 \ 
backends (:issue:`8442`, :pull:`8571`).
  By `Kai Mühlbauer <https://github.com/kmuehlbauer>`_.
- Add tests and fixes for empty :py:class:`CFTimeIndex`, including broken html \ 
repr (:issue:`7298`, :pull:`8600`).
  By `Mathias Hauser <https://github.com/mathause>`_.

Internal Changes
~~~~~~~~~~~~~~~~

- The implementation of :py:func:`map_blocks` has changed to minimize graph size \ 
and duplication of data.
  This should be a strict improvement even though the graphs are not always \ 
embarassingly parallel any more.
  Please open an issue if you spot a regression. (:pull:`8412`, :issue:`8409`).
  By `Deepak Cherian <https://github.com/dcherian>`_.
- Remove null values before plotting. (:pull:`8535`).
  By `Jimmy Westling <https://github.com/illviljan>`_.
- Redirect cumulative reduction functions internally through the \ 
:py:class:`ChunkManagerEntryPoint`,
  potentially allowing :py:meth:`~xarray.DataArray.ffill` and \ 
:py:meth:`~xarray.DataArray.bfill` to
  use non-dask chunked array types.
   2023-08-02 01:20:57 by Thomas Klausner | Files touched by this commit (158)
Log message:
*: remove more references to Python 3.7
   2023-07-01 10:37:47 by Thomas Klausner | Files touched by this commit (105) | Package updated
Log message:
*: restrict py-numpy users to 3.9+ in preparation for update
   2023-06-06 14:42:56 by Taylor R Campbell | Files touched by this commit (1319)
Log message:
Mass-change BUILD_DEPENDS to TOOL_DEPENDS outside mk/.

Almost all uses, if not all of them, are wrong, according to the
semantics of BUILD_DEPENDS (packages built for target available for
use _by_ tools at build-time) and TOOL_DEPEPNDS (packages built for
host available for use _as_ tools at build-time).

No change to BUILD_DEPENDS as used correctly inside buildlink3.

As proposed on tech-pkg:
https://mail-index.netbsd.org/tech-pkg/2023/06/03/msg027632.html
   2022-02-10 15:11:31 by Adam Ciarcinski | Files touched by this commit (3) | Package updated
Log message:
py-xarray: updated to 0.21.1

v0.21.1 (31 January 2022)
-------------------------
This is a bugfix release to resolve

Bug fixes
~~~~~~~~~
- Add `packaging` as a dependency to Xarray

v0.21.0 (27 January 2022)
-------------------------

New Features
~~~~~~~~~~~~
- New top-level function :py:func:`cross`.
- ``keep_attrs`` support for :py:func:`where`
- Enable the limit option for dask array in the following methods \ 
:py:meth:`DataArray.ffill`, :py:meth:`DataArray.bfill`, :py:meth:`Dataset.ffill` \ 
and :py:meth:`Dataset.bfill`

Breaking changes
~~~~~~~~~~~~~~~~
- Rely on matplotlib's default datetime converters instead of pandas'
- Improve repr readability when there are a large number of dimensions in \ 
datasets or dataarrays by
  wrapping the text once the maximum display width has been exceeded.

Deprecations
~~~~~~~~~~~~
- Removed the lock kwarg from the zarr and pydap backends, completing the \ 
deprecation cycle started in :issue:`5256`.
- Support for ``python 3.7`` has been dropped.

Bug fixes
~~~~~~~~~
- Preserve chunks when creating a :py:class:`DataArray` from another \ 
:py:class:`DataArray`
- Properly support :py:meth:`DataArray.ffill`, :py:meth:`DataArray.bfill`, \ 
:py:meth:`Dataset.ffill` and :py:meth:`Dataset.bfill` along chunked dimensions
- Subclasses of ``byte`` and ``str`` (e.g. ``np.str_`` and ``np.bytes_``) will \ 
now serialise to disk rather than raising a ``ValueError: unsupported dtype for \ 
netCDF4 variable: object`` as they did previously
- Fix applying function with non-xarray arguments using :py:func:`xr.map_blocks`.
- No longer raise an error for an all-nan-but-one argument to
  :py:meth:`DataArray.interpolate_na` when using `method='nearest'`
- `dt.season \ 
<https://xarray.pydata.org/en/stable/generated/xarray.DataArray.dt.season.html>`_ \ 
 can now handle NaN and NaT.
- Determination of zarr chunks handles empty lists for encoding chunks or \ 
variable chunks that occurs in certain cirumstances

Internal Changes
~~~~~~~~~~~~~~~~
- Replace ``distutils.version`` with ``packaging.version``
- Removed internal checks for ``pd.Panel``
- Add ``pyupgrade`` pre-commit hook