Cellxgene-census

What's Changed

**Breaking changes:**
* Python package name has changed to `cellxgene_census`.

**Fixes**:
* Fix Python package import error on Python 3.8

**Summary of commits:**
* acceptance test run by bkmartinjr in https://github.com/chanzuckerberg/cellxgene-census/pull/310
* Modify GHA to push builder Docker image by ebezzi in https://github.com/chanzuckerberg/cellxgene-census/pull/312
* Add requirements.txt for notebooks by ebezzi in https://github.com/chanzuckerberg/cellxgene-census/pull/308
* rename ECR repo by ebezzi in https://github.com/chanzuckerberg/cellxgene-census/pull/334
* clean up dependencies for cell_census by bkmartinjr in https://github.com/chanzuckerberg/cellxgene-census/pull/337
* Rename to CELLxGENE Discover Census in README.md by ebezzi in https://github.com/chanzuckerberg/cellxgene-census/pull/333
* Python API name changes by ebezzi in https://github.com/chanzuckerberg/cellxgene-census/pull/339
* Add builder sub-module for old build cleanup by bkmartinjr in https://github.com/chanzuckerberg/cellxgene-census/pull/331
* name migration for tools/builder by bkmartinjr in https://github.com/chanzuckerberg/cellxgene-census/pull/340
* package name changes in docstrings by bkmartinjr in https://github.com/chanzuckerberg/cellxgene-census/pull/343
* [r] rename CellCensus to cellxgene.census by mlin in https://github.com/chanzuckerberg/cellxgene-census/pull/344
* add old package name redirect by bkmartinjr in https://github.com/chanzuckerberg/cellxgene-census/pull/346
* Adds cell census release info and cleans up storage policy by pablo-gar in https://github.com/chanzuckerberg/cellxgene-census/pull/314
* Add notebook guidelines by pablo-gar in https://github.com/chanzuckerberg/cellxgene-census/pull/316
* update package metadata to tag maturity as beta by bkmartinjr in https://github.com/chanzuckerberg/cellxgene-census/pull/348
* update cell census name in docstrings/md files by bkmartinjr in https://github.com/chanzuckerberg/cellxgene-census/pull/347


**Full Changelog**: https://github.com/chanzuckerberg/cellxgene-census/compare/v0.12.0...v0.13.0

What's Changed

Update package dependencies to specify `tiledbsoma` version `1.2.1`.

* work-around and diagnostics for Ctx excess allocation bug by bkmartinjr in https://github.com/chanzuckerberg/cell-census/pull/292
* [r] census_datasets vignette by mlin in https://github.com/chanzuckerberg/cell-census/pull/252
* miscellaneous builder fixes / cleanup by bkmartinjr in https://github.com/chanzuckerberg/cell-census/pull/298
* adds bug issue template by pablo-gar in https://github.com/chanzuckerberg/cell-census/pull/303
* "acceptance" tests by bkmartinjr in https://github.com/chanzuckerberg/cell-census/pull/305
* adds feature request template by pablo-gar in https://github.com/chanzuckerberg/cell-census/pull/302
* [r] add `get_seurat()` by mlin in https://github.com/chanzuckerberg/cell-census/pull/293


**Full Changelog**: https://github.com/chanzuckerberg/cell-census/compare/v0.11.0...v0.12.0

What's Changed
This release updates the cell census package to use `tiledbsoma v1.1.1`

* open_anndata unit test by ebezzi in https://github.com/chanzuckerberg/cell-census/pull/254
* Unit tests for staging datasets by ebezzi in https://github.com/chanzuckerberg/cell-census/pull/258
* Add validation data checks by Bento007 in https://github.com/chanzuckerberg/cell-census/pull/243
* setup_module for multiprocessing tests (test_source_assets) by ebezzi in https://github.com/chanzuckerberg/cell-census/pull/262
* assertion to confirm correct MP configuration by bkmartinjr in https://github.com/chanzuckerberg/cell-census/pull/263
* [r] use SOMATileDBContext by mlin in https://github.com/chanzuckerberg/cell-census/pull/256
* Util unit tests by ebezzi in https://github.com/chanzuckerberg/cell-census/pull/261
* Update lifecycle annotations to be consistent with tiledbsoma by ebezzi in https://github.com/chanzuckerberg/cell-census/pull/264
* Dockerfile for census builder by ebezzi in https://github.com/chanzuckerberg/cell-census/pull/267
* [r] add `get_presence_matrix` by mlin in https://github.com/chanzuckerberg/cell-census/pull/274
* Add note to tissue_mapper.py by ebezzi in https://github.com/chanzuckerberg/cell-census/pull/276
* Adds text to README to indicate pre-release state by pablo-gar in https://github.com/chanzuckerberg/cell-census/pull/273
* fix email address in Python package metadata by bkmartinjr in https://github.com/chanzuckerberg/cell-census/pull/281
* Update readmes by pablo-gar in https://github.com/chanzuckerberg/cell-census/pull/282
* improved build workflow by bkmartinjr in https://github.com/chanzuckerberg/cell-census/pull/272
* Add nbqa to reformat notebooks by ebezzi in https://github.com/chanzuckerberg/cell-census/pull/277
* update Python package dependency to tiledbsoma 1.1.1 by bkmartinjr in https://github.com/chanzuckerberg/cell-census/pull/287


**Full Changelog**: https://github.com/chanzuckerberg/cell-census/compare/v0.10.0...v0.11.0

What's Changed

Updated package to use `tiledbsoma` version `1.0.0`. There should be no breaking API changes.

* add unit tests for python cell_census package by bkmartinjr in https://github.com/chanzuckerberg/cell-census/pull/244
* [ci] fix paths-ignore in workflow YMLs by mlin in https://github.com/chanzuckerberg/cell-census/pull/251
* [r] add source h5ad accessor functions by mlin in https://github.com/chanzuckerberg/cell-census/pull/250
* Update to tiledbsoma 1.0.0 by bkmartinjr in https://github.com/chanzuckerberg/cell-census/pull/255


**Full Changelog**: https://github.com/chanzuckerberg/cell-census/compare/v0.9.0...v0.10.0

What's Changed
Updated package to use `tiledbsoma` version [`1.0.0rc4`](https://github.com/single-cell-data/TileDB-SOMA/releases/tag/1.0.0rc4). No significant changes to this package.

* [R] CellCensus package MVP by mlin in https://github.com/chanzuckerberg/cell-census/pull/206
* rename CI workflows by mlin in https://github.com/chanzuckerberg/cell-census/pull/232
* fix presence matrix wrong shape by ebezzi in https://github.com/chanzuckerberg/cell-census/pull/236
* rerun notebooks for census build 2023-02-28 by ebezzi in https://github.com/chanzuckerberg/cell-census/pull/234
* Change docstrings to use Google conventions by ebezzi in https://github.com/chanzuckerberg/cell-census/pull/233
* R docs by ebezzi in https://github.com/chanzuckerberg/cell-census/pull/226
* refactor ExperimentBuilder and validator for improved validator isolation by bkmartinjr in https://github.com/chanzuckerberg/cell-census/pull/237
* update to tiledbsoma 1.0.0rc4 by bkmartinjr in https://github.com/chanzuckerberg/cell-census/pull/239

New Contributors
* mlin made their first contribution in https://github.com/chanzuckerberg/cell-census/pull/206

**Full Changelog**: https://github.com/chanzuckerberg/cell-census/compare/v0.8.0...v0.9.0

What's Changed
Update to `tiledbsoma` version `1.0.0rc2`. No major changes to the `cell-census` package.

* Additional validation checks by Bento007 in https://github.com/chanzuckerberg/cell-census/pull/204
* enable duplicates for performance by bkmartinjr in https://github.com/chanzuckerberg/cell-census/pull/219
* Updates Readme by pablo-gar in https://github.com/chanzuckerberg/cell-census/pull/212
* Notebook documentation by ebezzi in https://github.com/chanzuckerberg/cell-census/pull/218
* Update python package and builder to tiledbsoma 1.0.0rc2 by bkmartinjr in https://github.com/chanzuckerberg/cell-census/pull/227


**Full Changelog**: https://github.com/chanzuckerberg/cell-census/compare/v0.7.0...v0.8.0