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Enable flox
in GroupBy
and resample
#5734
Enable flox
in GroupBy
and resample
#5734
Commits on Aug 12, 2021
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Merge branch 'groupby-aggs-using-numpy-groupies' of github.com:anders…
…y005/xarray into groupby_npg * 'groupby-aggs-using-numpy-groupies' of github.com:andersy005/xarray: Bump actions/github-script from 4.0.2 to 4.1 (pydata#5730) Set coord name concat when `concat`ing along a DataArray (pydata#5611) Add .git-blame-ignore-revs (pydata#5708) Type annotate tests (pydata#5728) Consolidate TypeVars in a single place (pydata#5569) add storage_options arg to to_zarr (pydata#5615) dataset `__repr__` updates (pydata#5580) Xfail failing test on main (pydata#5729) Add xarray-dataclasses to ecosystem in docs (pydata#5725) extend show_versions (pydata#5724) Move docstring for xr.set_options to numpy style (pydata#5702) Refactor more groupby and resample tests (pydata#5707) Remove suggestion to install pytest-xdist in docs (pydata#5713) Add typing to the OPTIONS dict (pydata#5678) Change annotations to allow str keys (pydata#5690) Whatsnew for float-to-top (pydata#5714) Use isort's float-to-top (pydata#5695) Fix errors in test_latex_name_isnt_split for min environments (pydata#5710) Improves rendering of complex LaTeX expressions as `long_name`s when plotting (pydata#5682) Use same bool validator as other inputs (pydata#5703)
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Merge branch 'groupby-aggs-using-numpy-groupies' of github.com:anders…
…y005/xarray into groupby-aggs-using-numpy-groupies * 'groupby-aggs-using-numpy-groupies' of github.com:andersy005/xarray: Update ci/requirements/environment-windows.yml
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Merge branch 'main' of github.com:pydata/xarray into groupby-aggs-usi…
…ng-numpy-groupies
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Merge remote-tracking branch 'upstream/main' into groupby-aggs-using-…
…numpy-groupies * upstream/main: (27 commits) Generator for groupby reductions (pydata#5871) whats-new dev whats-new for 0.20.1 (pydata#5943) Docs: fix URL for PTSA (pydata#5935) Fix a missing @requires_zarr in tests (pydata#5936) fix the detection of backend entrypoints (pydata#5931) Explicitly list all reductions in api.rst (pydata#5903) DOC: add names of missing contributors to 0.20.0 (pydata#5932) new whats-new.rst section Update open_rasterio deprecation version number (pydata#5916) v0.20 Release notes (pydata#5924) [skip-ci] v0.20.0: whats-new for release (pydata#5905) Update minimum dependencies for 0.20 (pydata#5917) Bump actions/github-script from 4.1 to 5 (pydata#5826) remove requirement for setuptools.pkg_resources (pydata#5845) Update docstring for apply_ufunc, set_options (pydata#5904) Display coords' units for slice plots (pydata#5847) Combine by coords dataarray bugfix (pydata#5834) Add .chunksizes property (pydata#5900) Add typing_extensions as a required dependency (pydata#5911) ...
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Merge remote-tracking branch 'upstream/main' into groupby-aggs-using-…
…numpy-groupies * upstream/main: Add groupby & resample benchmarks (pydata#5922) Fix plot.line crash for data of shape (1, N) in _title_for_slice on format_item (pydata#5948) Disable unit test comments (pydata#5946) Publish test results from workflow_run only (pydata#5947)
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Revert "Force test failure to check CI env"
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Merge remote-tracking branch 'upstream/main' into groupby-aggs-using-…
…numpy-groupies * upstream/main: Check for py version instead of try/except when importing entry_points (pydata#5988) Add "see also" in to_dataframe docs (pydata#5978) Alternate method using inline css to hide regular html output in an untrusted notebook (pydata#5880) Fix mypy issue with entry_points (pydata#5979) Remove pre-commit auto update (pydata#5958) Do not change coordinate inplace when throwing error (pydata#5957) Create CITATION.cff (pydata#5956)
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[pre-commit.ci] auto fixes from pre-commit.com hooks
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Revert "Force failure to make sure CI is working."
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Mixing in DatasetReduce fixes: xarray/tests/test_groupby.py:460: error: Invalid self argument "Dataset" to attribute function "mean" with type "Callable[[DatasetReduce, Optional[Hashable], Optional[bool], Optional[bool], KwArg(Any)], T_Dataset]" [misc] Switching to "Dateset" as returned type fixes: xarray/tests/test_groupby.py:77: error: Need type annotation for "expected" [var-annotated]
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Now get normal code running as well
Protocols are not needed anymore when subclassing/defining directly in the class. When adding a dummy method in DatasetResampleReductions the order of subclassing had to be changed so the correct reduce was used.
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[pre-commit.ci] auto fixes from pre-commit.com hooks
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Merge branch 'generate-reductions-class' of https://github.com/dcheri…
…an/xarray into pr/5950
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Update xarray/util/generate_reductions.py
Co-authored-by: Illviljan <[email protected]>
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Squashed commit of the following: commit 6916fa7 Author: Deepak Cherian <[email protected]> Date: Mon Nov 22 11:16:43 2021 -0700 Update xarray/util/generate_reductions.py Co-authored-by: Illviljan <[email protected]> commit cd8a898 Author: dcherian <[email protected]> Date: Sat Nov 20 14:37:17 2021 -0700 add doctests commit 19d82cd Author: Illviljan <[email protected]> Date: Sat Nov 20 22:00:29 2021 +0100 more reduce commit 0f94bec Author: Illviljan <[email protected]> Date: Sat Nov 20 20:48:27 2021 +0100 another reduce commit be33560 Author: Illviljan <[email protected]> Date: Sat Nov 20 20:28:39 2021 +0100 one more reduce commit 3d854e5 Author: Illviljan <[email protected]> Date: Sat Nov 20 20:21:26 2021 +0100 more reduce edits commit 2bbddaf Author: Illviljan <[email protected]> Date: Sat Nov 20 20:12:31 2021 +0100 make reduce args consistent commit dfbe103 Merge: f03b675 dd28a57 Author: Illviljan <[email protected]> Date: Sat Nov 20 19:01:59 2021 +0100 Merge branch 'generate-reductions-class' of https://github.com/dcherian/xarray into pr/5950 commit f03b675 Merge: 411d75d 7a201de Author: Illviljan <[email protected]> Date: Sat Nov 20 19:01:42 2021 +0100 Merge branch 'main' into pr/5950 commit dd28a57 Author: dcherian <[email protected]> Date: Sat Nov 20 10:57:22 2021 -0700 updates commit 6a9a124 Author: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com> Date: Sat Nov 20 17:02:07 2021 +0000 [pre-commit.ci] auto fixes from pre-commit.com hooks for more information, see https://pre-commit.ci commit 411d75d Author: Illviljan <[email protected]> Date: Sat Nov 20 18:00:08 2021 +0100 Now get normal code running as well Protocols are not needed anymore when subclassing/defining directly in the class. When adding a dummy method in DatasetResampleReductions the order of subclassing had to be changed so the correct reduce was used. commit 5dcb5bf Author: Illviljan <[email protected]> Date: Sat Nov 20 12:30:50 2021 +0100 Attempt fixing typing errors Mixing in DatasetReduce fixes: xarray/tests/test_groupby.py:460: error: Invalid self argument "Dataset" to attribute function "mean" with type "Callable[[DatasetReduce, Optional[Hashable], Optional[bool], Optional[bool], KwArg(Any)], T_Dataset]" [misc] Switching to "Dateset" as returned type fixes: xarray/tests/test_groupby.py:77: error: Need type annotation for "expected" [var-annotated] commit 7a201de Author: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com> Date: Fri Nov 19 11:37:20 2021 -0700 [pre-commit.ci] pre-commit autoupdate (pydata#5990) commit 95394d5 Author: Illviljan <[email protected]> Date: Mon Nov 15 21:40:37 2021 +0100 Use set_options for asv bottleneck tests (pydata#5986) * Use set_options for bottleneck tests * Use set_options in rolling * Update rolling.py * [pre-commit.ci] auto fixes from pre-commit.com hooks for more information, see https://pre-commit.ci * Update rolling.py * Update rolling.py * set_options not needed. Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com> commit b2d7cd8 Author: Kai Mühlbauer <[email protected]> Date: Mon Nov 15 18:33:43 2021 +0100 Fix module name retrieval in `backend.plugins.remove_duplicates()`, plugin tests (pydata#5959) Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com> commit c7e9d96 Author: dcherian <[email protected]> Date: Wed Nov 10 11:49:47 2021 -0700 Minor improvement commit dea8fd9 Author: dcherian <[email protected]> Date: Mon Nov 8 16:18:07 2021 -0700 REfactor commit 9bb2c32 Author: dcherian <[email protected]> Date: Mon Nov 8 13:56:53 2021 -0700 Reorder docstring to match numpy commit 99bfe12 Author: dcherian <[email protected]> Date: Mon Nov 8 12:44:23 2021 -0700 Fixes pydata#5898 commit 7f39cc0 Author: dcherian <[email protected]> Date: Mon Nov 8 12:39:00 2021 -0700 Minor docstring improvements. commit a04ed82 Author: dcherian <[email protected]> Date: Mon Nov 8 12:35:48 2021 -0700 Small changes commit 816e794 Author: dcherian <[email protected]> Date: Sun Nov 7 20:56:37 2021 -0700 Generate DataArray, Dataset reductions too. commit 569c67f Author: dcherian <[email protected]> Date: Sun Nov 7 20:54:42 2021 -0700 Add ddof for var, std commit 6b9a81a Author: dcherian <[email protected]> Date: Sun Nov 7 20:35:52 2021 -0700 Better generator for reductions.
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Update xarray/util/generate_reductions.py
Co-authored-by: Mathias Hauser <[email protected]>
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Merge remote-tracking branch 'upstream/main' into groupby-aggs-using-…
…numpy-groupies * upstream/main: Fixed a mispelling of dimension in dataarray documentation for from_dict (pydata#6020) [pre-commit.ci] pre-commit autoupdate (pydata#6014) [pre-commit.ci] pre-commit autoupdate (pydata#5990) Use set_options for asv bottleneck tests (pydata#5986) Fix module name retrieval in `backend.plugins.remove_duplicates()`, plugin tests (pydata#5959)
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Merge remote-tracking branch 'upstream/main' into generate-reductions…
…-class * upstream/main: Fixed a mispelling of dimension in dataarray documentation for from_dict (pydata#6020) [pre-commit.ci] pre-commit autoupdate (pydata#6014)
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Merge branch 'generate-reductions-class' of https://github.com/dcheri…
…an/xarray into pr/5950
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* main: [pre-commit.ci] pre-commit autoupdate (pydata#6115) Make CI pass by limiting dask version (pydata#6111) Fix mypy precommit (pydata#6110) [pre-commit.ci] pre-commit autoupdate (pydata#6088) Add type definitions in prep for pydata#6086 (pydata#6090) Replace distutils.version with packaging.version (pydata#6096) Attempt datetime coding using cftime when pandas fails (pydata#6049) fix tests for h5netcdf v0.12 (pydata#6097) disable pytest-xdist (to check CI failure) (pydata#6077) cftime: 'gregorian' -> 'standard' [test-upstream] (pydata#6082) Add release note skeleton for 0.21 (pydata#6061)
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…numpy-groupies * upstream/main: Replace markdown issue templates with issue forms (pydata#6119) Remove lock kwarg (pydata#5912) Remove pre-commit GHA workflow (pydata#6120) is_dask_collection: micro optimization (pydata#6107) Revert "Single matplotlib import (pydata#5794)" (pydata#6064) Add support for cross product (pydata#5365) assert ds errors in test_backends (pydata#6122) assert ds errors in test_dataset.py (pydata#6123)
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…numpy-groupies * upstream/main: (23 commits) Small typing fix (pydata#6159) Drop support for python 3.7 (pydata#5892) _season_from_months can now handle np.nan (pydata#5876) Use base ImportError not MoudleNotFoundError when trying to see if the (pydata#6154) Remove numpy from mypy pre-commit (pydata#6151) Change concat dims to be Hashable (pydata#6121) Bump pypa/gh-action-pypi-publish from 1.4.2 to 1.5.0 (pydata#6147) Remove registration of pandas datetime converter in plotting (pydata#6109) Remove pd.Panel checks (pydata#6145) Remove paren from DataArray.from_dict docstring (pydata#6140) Revert "Deprecate bool(ds) (pydata#6126)" (pydata#6141) remove paren from data that is fed to 1D DataArray (pydata#6139) Check for just `...`, rather than `[...]` in `da.stack` (pydata#6132) DOC: Add "auto" to dataarray `chunk` method (pydata#6068) TST: check datetime converter is Matplotlibs (pydata#6128) New algorithm for forward filling (pydata#6118) Limit and format number of displayed dimensions in repr (pydata#5662) Add labels to dataset diagram (pydata#6076) Deprecate bool(ds) (pydata#6126) Revert "disable pytest-xdist (to check CI failure)" (pydata#6127) ...
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* main: (32 commits) Small typing fix (pydata#6159) Drop support for python 3.7 (pydata#5892) _season_from_months can now handle np.nan (pydata#5876) Use base ImportError not MoudleNotFoundError when trying to see if the (pydata#6154) Remove numpy from mypy pre-commit (pydata#6151) Change concat dims to be Hashable (pydata#6121) Bump pypa/gh-action-pypi-publish from 1.4.2 to 1.5.0 (pydata#6147) Remove registration of pandas datetime converter in plotting (pydata#6109) Remove pd.Panel checks (pydata#6145) Remove paren from DataArray.from_dict docstring (pydata#6140) Revert "Deprecate bool(ds) (pydata#6126)" (pydata#6141) remove paren from data that is fed to 1D DataArray (pydata#6139) Check for just `...`, rather than `[...]` in `da.stack` (pydata#6132) DOC: Add "auto" to dataarray `chunk` method (pydata#6068) TST: check datetime converter is Matplotlibs (pydata#6128) New algorithm for forward filling (pydata#6118) Limit and format number of displayed dimensions in repr (pydata#5662) Add labels to dataset diagram (pydata#6076) Deprecate bool(ds) (pydata#6126) Revert "disable pytest-xdist (to check CI failure)" (pydata#6127) ...
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Merge branch 'main' into generate-reductions-class
* main: (71 commits) Bump actions/setup-python from 2 to 3 (pydata#6338) Bump actions/checkout from 2 to 3 (pydata#6337) In documentation on adding a new backend, add missing import and tweak headings (pydata#6330) Lengthen underline, correct spelling, and reword (pydata#6326) quantile: use skipna=None (pydata#6303) New whatsnew section v2022.03.0 release notes (pydata#6319) fix typos (using codespell) (pydata#6316) Add General issue template (pydata#6314) Disable CI runs on forks (pydata#6315) Enable running sphinx-build on Windows (pydata#6237) Fix class attributes versus init parameters (pydata#6312) On Windows, enable successful test of opening a dataset containing a cftime index (pydata#6305) from_dict: doctest (pydata#6302) Drop duplicates over multiple dims, and add Dataset.drop_duplicates (pydata#6307) Amended docs on how to add a new backend (pydata#6292) Adding the new wrapper gsw-xarray (pydata#6294) Amended docstring to reflect the actual behaviour of Dataset.map (pydata#6232) Align language def in bugreport.yml with schema (pydata#6290) Move Zarr up in io.rst (pydata#6289) ...
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Merge branch 'main' into groupby-aggs-using-numpy-groupies
* main: (68 commits) Bump actions/setup-python from 2 to 3 (pydata#6338) Bump actions/checkout from 2 to 3 (pydata#6337) In documentation on adding a new backend, add missing import and tweak headings (pydata#6330) Lengthen underline, correct spelling, and reword (pydata#6326) quantile: use skipna=None (pydata#6303) New whatsnew section v2022.03.0 release notes (pydata#6319) fix typos (using codespell) (pydata#6316) Add General issue template (pydata#6314) Disable CI runs on forks (pydata#6315) Enable running sphinx-build on Windows (pydata#6237) Fix class attributes versus init parameters (pydata#6312) On Windows, enable successful test of opening a dataset containing a cftime index (pydata#6305) from_dict: doctest (pydata#6302) Drop duplicates over multiple dims, and add Dataset.drop_duplicates (pydata#6307) Amended docs on how to add a new backend (pydata#6292) Adding the new wrapper gsw-xarray (pydata#6294) Amended docstring to reflect the actual behaviour of Dataset.map (pydata#6232) Align language def in bugreport.yml with schema (pydata#6290) Move Zarr up in io.rst (pydata#6289) ...
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Merge branch 'generate-reductions-class' into groupby-aggs-using-nump…
…y-groupies * generate-reductions-class: (31 commits) polish update _reductions Fixes Apply suggestions from code review Fix path manual tweaks to make ci happy Update _reductions.py Write to file using open() instead. force keyword args after dim Annotate some reduction tests. Update xarray/util/generate_reductions.py Update xarray/util/generate_reductions.py add doctests more reduce another reduce one more reduce more reduce edits make reduce args consistent updates [pre-commit.ci] auto fixes from pre-commit.com hooks ...
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* main: Generate reductions for DataArray, Dataset, GroupBy and Resample (pydata#5950) explicitly install `ipython_genutils` (pydata#6350)
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…numpy-groupies * upstream/main: Run pyupgrade on core/groupby (pydata#6351)
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* main: (23 commits) Vectorize groupby binary ops (pydata#6160) Speed-up multi-index html repr + add display_values_threshold option (pydata#6400) [pre-commit.ci] pre-commit autoupdate (pydata#6422) Fix concat scalar coord dtype (pydata#6418) use the `DaskIndexingAdapter` for `duck dask` arrays (pydata#6414) Weighted quantile (pydata#6059) upgrade `sphinx` (pydata#6415) Add kwarg-only breaking change to whats-new (pydata#6409) [pre-commit.ci] pre-commit autoupdate (pydata#6396) fix DataArray groupby returning a Dataset (pydata#6394) reindex: fix missing variable metadata (pydata#6389) [skip-ci] Add benchmarks for groupby math (pydata#6390) Fix concat with scalar coordinate (pydata#6385) isel: convert IndexVariable to Variable if index is dropped (pydata#6388) fix dataset groupby combine dataarray func (pydata#6386) fix concat with variable or dataarray as dim (pydata#6387) pydata#6367 Fix for time units checking could produce "unhashable type" error (pydata#6368) Explicit indexes (pydata#5692) Remove test_rasterio_vrt_network (pydata#6371) Allow write_empty_chunks to be set in Zarr encoding (pydata#6348) ...
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Merge branch 'groupby-aggs-using-numpy-groupies' of github.com:anders…
…y005/xarray into groupby-aggs-using-numpy-groupies * 'groupby-aggs-using-numpy-groupies' of github.com:andersy005/xarray: [skip-ci] Apply suggestions from code review
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Merge branch 'groupby-aggs-using-numpy-groupies' of github.com:anders…
…y005/xarray into groupby-aggs-using-numpy-groupies * 'groupby-aggs-using-numpy-groupies' of github.com:andersy005/xarray: [pre-commit.ci] auto fixes from pre-commit.com hooks
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* main: (26 commits) Remove xarray.ufuncs (pydata#6491) Convert readme to markdown (pydata#6495) HTML repr fix for Furo Sphinx theme (pydata#6501) Restrict stalebot on projects & milestones (pydata#6498) Ensure datetime-like variables are left unmodified by `decode_cf_variable` (pydata#6489) Add link to xarray binder to readme (pydata#6494) Add details section to issue template (pydata#6486) [skip-ci] Redirect raster analysis questions to rioxarray (pydata#6455) Accessing the Exception message via e.args[0] (pydata#6451) Add support in the "zarr" backend for reading NCZarr data (pydata#6420) Propagate MultiIndex variables in broadcast (pydata#6477) Fix whatnsew build error (pydata#6480) allow other and drop arguments in where (gh#6466) (pydata#6467) [pre-commit.ci] pre-commit autoupdate (pydata#6472) Fix `xr.where(..., keep_attrs=True)` bug (pydata#6461) Fix `Number` import (pydata#6474) Support **kwargs form in `.chunk()` (pydata#6471) Bump actions/upload-artifact from 2 to 3 (pydata#6468) Bump codecov/codecov-action from 2.1.0 to 3.0.0 (pydata#6470) Bump actions/download-artifact from 2 to 3 (pydata#6469) ...
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Merge branch 'groupby-aggs-using-numpy-groupies' of github.com:anders…
…y005/xarray into groupby-aggs-using-numpy-groupies * 'groupby-aggs-using-numpy-groupies' of github.com:andersy005/xarray: Update ci/requirements/environment-windows.yml
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…numpy-groupies * upstream/main: [pre-commit.ci] pre-commit autoupdate (pydata#6562) Run mypy tests (but always pass) (pydata#6557) Update issue template to include a checklist (pydata#6522) Remove duplicate tests, v3 (pydata#6550) Skip mypy tests in CI (pydata#6552) Direct usage questions to GH discussions (pydata#6539) Revert "Attempt to improve CI caching (pydata#6534)" (pydata#6543) Revert "Remove duplicate tests (pydata#6536)" (pydata#6540) Remove duplicate tests (pydata#6536) Add a slighly cheesy contributors panel to readme (pydata#6520) Fix doctest & mypy CI jobs (pydata#6535) Attempt to improve CI caching (pydata#6534) Attempt to consolidate tests in CI (pydata#6533) Restrict annotations to a single run in GHA (pydata#6532) Fix some mypy issues (pydata#6531) Pin version of black in pre-commit blackdoc (pydata#6492) Scale numfocus image in readme (pydata#6519) Use new importlib.metadata.entry_points interface where available. (pydata#6516) Add a badge for binder (pydata#6518) Bump codecov/codecov-action from 3.0.0 to 3.1.0 (pydata#6509)
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Add Resample._flox_reduce. Change inheritance order to make things work.
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Try subclassing to ResampleBase-classes
Resample assumes having self._group_dim but that was never defined earlier, mypy should complain about this if the class was typed.
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Merge branch 'groupby-aggs-using-numpy-groupies' of https://github.co…
…m/andersy005/xarray into pr/5734
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