Lamindb

What's Changed
* ✏️ Fix ending ) of record display by sunnyosun in https://github.com/laminlabs/lamindb/pull/873
* 🎉 Stage 0.47.0 by falexwolf in https://github.com/laminlabs/lamindb/pull/874


**Full Changelog**: https://github.com/laminlabs/lamindb/compare/0.46.3...0.47.0

What's Changed
* 🐛 Fix the variable bug in File.delete by Koncopd in https://github.com/laminlabs/lamindb/pull/811
* 🎉 Stage release 0.46 (`Dataset`, `Feature`, hierarchical ORMs) by falexwolf in https://github.com/laminlabs/lamindb/pull/806
* 🎉 Stage 0.46 (refactor, signatures, fixes) by falexwolf in https://github.com/laminlabs/lamindb/pull/814
* 🚑️ Handles categorical input for map_synonyms by sunnyosun in https://github.com/laminlabs/lamindb/pull/819
* 🚸 Parse features for `AnnData` by falexwolf in https://github.com/laminlabs/lamindb/pull/818
* 🎨 Allow passing parents=False to ln.save by sunnyosun in https://github.com/laminlabs/lamindb/pull/820
* 🐛 Fix passing parents to save by sunnyosun in https://github.com/laminlabs/lamindb/pull/821
* 🎉 Stage 0.46 (refactor features, file description, setup behavior, species setting) by falexwolf in https://github.com/laminlabs/lamindb/pull/826
* 🚨 Remove warnings from zarr writing by Koncopd in https://github.com/laminlabs/lamindb/pull/829
* 🎉 Stage 0.46 (annotate, ...) by falexwolf in https://github.com/laminlabs/lamindb/pull/831
* 🩹 Fix error on read partial when no spec is present by Koncopd in https://github.com/laminlabs/lamindb/pull/842
* 🎉 Stage 0.46 (hashing, backed, parents) by falexwolf in https://github.com/laminlabs/lamindb/pull/835
* 🐛 Check type after na removal by sunnyosun in https://github.com/laminlabs/lamindb/pull/843
* 🎉 Stage 0.46 (from_df, from_anndata, docs) by falexwolf in https://github.com/laminlabs/lamindb/pull/845
* 🎉 Stage 0.46 by falexwolf in https://github.com/laminlabs/lamindb/pull/847


**Full Changelog**: https://github.com/laminlabs/lamindb/compare/0.45.0...0.46.0

What's Changed
* ✅ Add some unit tests for storage by Koncopd in https://github.com/laminlabs/lamindb/pull/801
* 🎨 Auto-manage `RunInput` ORM by falexwolf in https://github.com/laminlabs/lamindb/pull/802
* ♻️ Replaced `ln.parse` with `ORM.from_values` by sunnyosun in https://github.com/laminlabs/lamindb/pull/803


**Full Changelog**: https://github.com/laminlabs/lamindb/compare/0.44.2...0.45.0

What's Changed
* 🔊 Move logging from stderr to stdout by falexwolf in https://github.com/laminlabs/lamindb/pull/776
* 🩹 Increase char length `Transform.short_name` to 128 by falexwolf in https://github.com/laminlabs/lamindb/pull/778
* 🚀 Fix coverage of unit tests by sunnyosun in https://github.com/laminlabs/lamindb/pull/777
* ⬆️ Field is no longer required for map_synonyms and search in bionty by sunnyosun in https://github.com/laminlabs/lamindb/pull/779
* ✨ Add backed access to raw h5 and zarr objects by Koncopd in https://github.com/laminlabs/lamindb/pull/781
* 📝 Re-group readme by falexwolf in https://github.com/laminlabs/lamindb/pull/782
* ⬆️ Fix empty string bug in map_synonyms by sunnyosun in https://github.com/laminlabs/lamindb/pull/780
* 🚸 Idempotency across metadata records & data artifacts by falexwolf in https://github.com/laminlabs/lamindb/pull/783
* 🎨 Remove `lnhub-rest` from `lamindb-setup` by falexwolf in https://github.com/laminlabs/lamindb/pull/784
* 🏷️ Change name to a required field for ontology tables by sunnyosun in https://github.com/laminlabs/lamindb/pull/785
* ✨ Added map_synonyms to baseORM by sunnyosun in https://github.com/laminlabs/lamindb/pull/786
* ⬆️ Save to DB if record already exists for add_synonyms by sunnyosun in https://github.com/laminlabs/lamindb/pull/787
* 🚸 Allow configuring search for alternative names via `settings.upon_create_search_names` by falexwolf in https://github.com/laminlabs/lamindb/pull/788
* ⬆️ Allow create multiple records with .from_bionty by sunnyosun in https://github.com/laminlabs/lamindb/pull/789


**Full Changelog**: https://github.com/laminlabs/lamindb/compare/0.43.0...0.44.0

What's Changed
* :memo: Switch to bullet-list in changelog by falexwolf in https://github.com/laminlabs/lamindb/pull/767
* ✅ Add integrity tests for migrations back by falexwolf in https://github.com/laminlabs/lamindb/pull/768
* 🐛 Make `User.name` nullable again by falexwolf in https://github.com/laminlabs/lamindb/pull/769
* ♻️ Refactor core schema methods and storage access by falexwolf in https://github.com/laminlabs/lamindb/pull/770
* 🚸 `ln.settings` can now change logging verbosity levels by falexwolf in https://github.com/laminlabs/lamindb/pull/630
* 🚸 Return existing file if hash exists (idempotency) by falexwolf in https://github.com/laminlabs/lamindb/pull/772
* 🚸 Introduce `ln.settings.storage` to switch default storage by falexwolf in https://github.com/laminlabs/lamindb/pull/773
* ✨ Enable `BaseORM.search()` and improved `BaseORM.lookup()` by sunnyosun in https://github.com/laminlabs/lamindb/pull/771
* 🎨 Consolidate `lnschema_bionty` and upgrade to latest Bionty by falexwolf in https://github.com/laminlabs/lamindb/pull/775


**Full Changelog**: https://github.com/laminlabs/lamindb/compare/0.42.0...0.43.0

What's Changed
* ⬆️ Update lndb to 0.45.0 by Koncopd in https://github.com/laminlabs/lamindb/pull/698
* 🏗️ Add Django backend (setup) by falexwolf in https://github.com/laminlabs/lamindb/pull/697
* 🚚 Rename `lndb` to `lamindb_setup` by falexwolf in https://github.com/laminlabs/lamindb/pull/699
* 🚚 Move lndb-storage back into lamindb by falexwolf in https://github.com/laminlabs/lamindb/pull/700
* ♻️ Refactored feature parsing and `ln.parse` by sunnyosun in https://github.com/laminlabs/lamindb/pull/701
* 🔊 Add more loggings to `ln.parse` by sunnyosun in https://github.com/laminlabs/lamindb/pull/703
* 🎨 Simplified track sample-level metadata by sunnyosun in https://github.com/laminlabs/lamindb/pull/705
* 🏗️ Enable Django backend (part 2) by falexwolf in https://github.com/laminlabs/lamindb/pull/702
* 🔒️ ln.track improvements by Koncopd in https://github.com/laminlabs/lamindb/pull/704
* 🐛 Disentangle keys in storage related test notebooks by Koncopd in https://github.com/laminlabs/lamindb/pull/708
* ♻️ Absorb `DjangoORM.create()` in `DjangoORM.__init__()` by falexwolf in https://github.com/laminlabs/lamindb/pull/707
* 🔥 Remove SQLAlchemy tests by falexwolf in https://github.com/laminlabs/lamindb/pull/709
* ➕ Pin boto3 in aws by Koncopd in https://github.com/laminlabs/lamindb/pull/712
* 🔥 Delete SQLAlchemy related content by falexwolf in https://github.com/laminlabs/lamindb/pull/710
* ➖ Move nbproject to extra dependencies by Koncopd in https://github.com/laminlabs/lamindb/pull/711
* 💚 Point to lamindb-setup main & fix session by falexwolf in https://github.com/laminlabs/lamindb/pull/713
* 📝 Rework the stream notebook by Koncopd in https://github.com/laminlabs/lamindb/pull/714
* 🐛 Fix delete for File by Koncopd in https://github.com/laminlabs/lamindb/pull/715
* ♻️ Polish core schema by falexwolf in https://github.com/laminlabs/lamindb/pull/717
* 🚚 Migrate `lnschema-bionty` to Django by falexwolf in https://github.com/laminlabs/lamindb/pull/716
* ⬆️ Upgrade lnschema-core to 0.35a5 by sunnyosun in https://github.com/laminlabs/lamindb/pull/718
* 🚚 Rename `ln.add` to `ln.save` by falexwolf in https://github.com/laminlabs/lamindb/pull/719
* 🏗️ Re-architect transform id by falexwolf in https://github.com/laminlabs/lamindb/pull/720
* 🔥 Remove `ln.nb` by falexwolf in https://github.com/laminlabs/lamindb/pull/721
* 🎨 Import ORMs from .models before reload by sunnyosun in https://github.com/laminlabs/lamindb/pull/723
* 👷 Coverage in separate job by falexwolf in https://github.com/laminlabs/lamindb/pull/722
* 🔊 `folder.tree` can only be used with existing folders in storage by sunnyosun in https://github.com/laminlabs/lamindb/pull/724
* 🚚 Renamed BiontyVersions to BiontySource by sunnyosun in https://github.com/laminlabs/lamindb/pull/725
* 🧪 Add tests for `folder.tree()` by sunnyosun in https://github.com/laminlabs/lamindb/pull/726
* 📝 Add `configure` guide instead of setup by falexwolf in https://github.com/laminlabs/lamindb/pull/727
* ♻️ Refactored features code by sunnyosun in https://github.com/laminlabs/lamindb/pull/731
* 📝 Overhaul README by falexwolf in https://github.com/laminlabs/lamindb/pull/728
* 🚸 Add `select` method to `BaseORM` by falexwolf in https://github.com/laminlabs/lamindb/pull/730
* :memo: Integrate lnschema-bionty into reference by falexwolf in https://github.com/laminlabs/lamindb/pull/732
* :truck: Move lnschema-bionty by falexwolf in https://github.com/laminlabs/lamindb/pull/734
* :children_crossing: Validate required fields by falexwolf in https://github.com/laminlabs/lamindb/pull/735
* ⬆️ First stable release Django release of `lnschema-bionty` by sunnyosun in https://github.com/laminlabs/lamindb/pull/733
* ⚡ Improved multifield query in `ln.parse` by sunnyosun in https://github.com/laminlabs/lamindb/pull/736
* 🚸 Back to protect as default by falexwolf in https://github.com/laminlabs/lamindb/pull/737
* ✨ Populate `bionty_version` in `ln.parse` by sunnyosun in https://github.com/laminlabs/lamindb/pull/739
* 🚚 Re-organize biology guides by falexwolf in https://github.com/laminlabs/lamindb/pull/740
* 📝 Fix upload of `lnschema-bionty` notebook run by falexwolf in https://github.com/laminlabs/lamindb/pull/741
* ⚠️ Refactor save - it no longer returns records by falexwolf in https://github.com/laminlabs/lamindb/pull/742
* 🚚 Rename Featureset to FeatureSet by sunnyosun in https://github.com/laminlabs/lamindb/pull/750
* ⬆️ Rename source_key to source in BiontySource by sunnyosun in https://github.com/laminlabs/lamindb/pull/751
* ✨ Add to_adata method to AnnDataAccessor by Koncopd in https://github.com/laminlabs/lamindb/pull/752
* 💚 Remove test paths from pyproject.toml by falexwolf in https://github.com/laminlabs/lamindb/pull/753
* ✅ Add more tests for File init by falexwolf in https://github.com/laminlabs/lamindb/pull/755
* ✨ Delete storage in File.delete by Koncopd in https://github.com/laminlabs/lamindb/pull/754
* ♻️ Move all File creation logic from `lnschema-core` here by falexwolf in https://github.com/laminlabs/lamindb/pull/756
* 🚸 Prefix auto-storage-key with `lndb/` by falexwolf in https://github.com/laminlabs/lamindb/pull/757
* ♻️ Clean up core schema module by falexwolf in https://github.com/laminlabs/lamindb/pull/758
* ⬆️ Update bionty schema by sunnyosun in https://github.com/laminlabs/lamindb/pull/759
* 🔥 Remove stream and lazy by Koncopd in https://github.com/laminlabs/lamindb/pull/760
* 🔥 Remove `File.stream()` by falexwolf in https://github.com/laminlabs/lamindb/pull/761
* 👷 Dispatch to lamin-examples & redun-lamin-fasta by falexwolf in https://github.com/laminlabs/lamindb/pull/762
* ♻️ Use `TransformType` by falexwolf in https://github.com/laminlabs/lamindb/pull/763
* 📝 Prettify docs by falexwolf in https://github.com/laminlabs/lamindb/pull/764
* 🔧 Add commitizen by falexwolf in https://github.com/laminlabs/lamindb/pull/765
* 🔧 Remove commitizen by falexwolf in https://github.com/laminlabs/lamindb/pull/766


**Full Changelog**: https://github.com/laminlabs/lamindb/compare/0.41.1...0.42.0