Changelog 2022¶
nbproject¶
Name |
PR |
Developer |
Date |
Version |
---|---|---|---|---|
⬆️ Upgrade to pydantic v2 |
2024-07-23 |
|||
⚡️ Warn instead of raising the exception when ipylab is not installed |
2024-05-08 |
0.10.3 |
||
♻️ Make ipylab an optional dependency |
2024-05-06 |
|||
🔇 Silence erroneous logging |
2024-02-27 |
0.10.1 |
||
🚸 Init version at 1 |
2024-01-11 |
0.10.0 |
||
🚸 Improve error message when empty notebook is passed |
2024-01-04 |
|||
👷 Ruff and 3.11 |
2023-12-26 |
|||
🩹 Account for empty notebook in consecutiveness check |
2023-10-01 |
|||
📝 Fix image link |
2023-09-18 |
|||
🚸 More robust title parsing |
2023-08-15 |
0.9.2 |
||
📝 Simplify docs, adopt new lamin.ai static site architecture |
2023-08-04 |
0.9.1 |
||
♻️ Remove loguru-dependent call, expand |
2023-06-15 |
0.9.0 |
||
📝 Position nbproject |
2023-06-15 |
|||
🩹 Try to get vs code path first |
2023-06-10 |
|||
🦺 Safer parsing during initialization |
2023-06-03 |
0.8.7 |
||
➖ Remove nbproject-test from dependencies |
2023-05-30 |
|||
🐛 Safer ipylab initialization |
2023-04-18 |
0.8.6 |
||
🐛 Fix VS Code integration for recent VS Code versions |
2023-04-17 |
0.8.5 |
||
♻️ Replace |
2023-04-10 |
0.8.4 |
||
🚸 Allow to not display metadata |
2023-03-12 |
0.8.3 |
||
⬆️ Observe |
2023-02-16 |
0.8.2 |
||
✨ Safer notebook path inference and more ways to do it |
2023-02-10 |
|||
🐛 Check keys before accessing in |
2023-02-08 |
|||
:zap: Do nothing with ipylab when not in ipython |
2022-11-14 |
|||
🚸 Only init |
2022-11-13 |
0.8.1 |
||
🚸 Do no longer auto-bump |
2022-11-12 |
0.8.0 |
||
🚚 Rename |
2022-11-12 |
|||
💄 Fix PyPI badge color & change badge order |
2022-10-24 |
|||
♻️ Read user name from settings |
2022-10-10 |
0.7.0 |
||
✨ Add |
2022-10-10 |
0.5.5 |
||
♻️ Refactor publish |
2022-10-07 |
0.5.4 |
||
✨ Allow setting nbproject |
2022-09-30 |
|||
📝 Expand some docstrings |
2022-09-30 |
|||
💄 Strip newline from title |
2022-09-24 |
0.5.3 |
||
🚚 Rename tutorials to guide, guides to FAQ |
2022-09-05 |
|||
📝 Add GitHub stars to docs |
2022-08-30 |
0.5.2 |
||
🩹 Identify VS Code as an environment |
2022-08-30 |
|||
🎨 Strip quickstart output, upgrade |
2022-08-29 |
|||
📝 Make a setup guide |
2022-08-29 |
|||
📝 Installation instructions and other things |
2022-08-28 |
0.5.1 |
||
🚸 Additional warnings and safety features |
2022-08-25 |
|||
✨ Add interactivity for classic jupyter notebooks |
2022-08-16 |
0.5.0 |
||
♻️ Clean up code |
2022-08-07 |
|||
⬆️ Upgrade to logger 0.1.1 & polish |
2022-07-24 |
|||
🩹 Safer interactive header update on initialization |
2022-07-23 |
|||
🔥 Switched logger to use |
2022-07-23 |
|||
📝 Polish |
2022-07-23 |
|||
📝 Add gif to quickstart |
2022-07-23 |
|||
♻️ Refactor exposure of |
2022-07-23 |
|||
🚸 Add logging to |
2022-07-20 |
0.4.5 |
||
🚸 Better logging on no-title error |
2022-07-20 |
0.4.4 |
||
💄 Allow chaining in |
2022-07-19 |
|||
♻️ Add return value for |
2022-07-19 |
0.4.3 |
||
♻️ Refactor and test |
2022-07-19 |
0.4.2 |
||
🚸 Do not raise error upon no-title, return code |
2022-07-19 |
0.4.1 |
||
💄 Added ✅ for success logging |
2022-07-19 |
|||
💄 Prettified logging |
2022-07-19 |
|||
🚸 Show table on initialization, ask to publish if cells not consecutive |
2022-07-18 |
|||
💄 Logging with icons |
2022-07-18 |
|||
🚸 Small changes to header, |
2022-07-18 |
|||
💄 Polish docs |
2022-07-18 |
0.4.0 |
||
✨ Allow passing |
2022-07-18 |
|||
💚 Fix the 3.7 & 3.8 tests |
2022-07-18 |
|||
📝 Simplify guide |
2022-07-17 |
|||
✨ Add a parent field to metadata and |
2022-07-17 |
|||
🚚 Rename |
2022-07-17 |
|||
💄 Simplify pypackage display & make version the 2nd field to be displayed |
2022-07-17 |
0.3.2 |
||
👷 Update CI with pyversions, update readme & docs with doi & clean-up |
2022-07-17 |
|||
✨ |
2022-07-17 |
|||
♻️ Refactored metadata display |
2022-07-17 |
|||
♻️ Small changes for |
2022-07-17 |
|||
🚸 More intuitive auto-lookup and API reference |
2022-07-16 |
|||
👷 Introduce compatibility with Python 3.7 |
2022-07-16 |
0.3.1 |
||
♻️ Refactor |
2022-07-16 |
0.3.0 |
||
🚚 Rename |
2022-07-16 |
|||
🚸 Remove complexity of Jupyter Lab interaction |
2022-07-15 |
|||
🚸 Indent JSON just as editors do |
2022-07-15 |
|||
🚸 Raise error upon publishing notebook without title |
2022-07-14 |
0.2.3 |
||
🚸 Remove execution of cells after metadata write |
2022-07-14 |
|||
🚸 Add an uninitialized project for |
2022-07-13 |
0.2.2 |
||
🚸 Add safety measures, better documentation & logging & tests |
2022-07-13 |
|||
🚸 Clearer logging output upon init in VS Code and Classic Notebook |
2022-07-13 |
|||
🔥 Remove automatically calling |
2022-07-13 |
|||
♻️ Enable passing the calling_code statement to publish |
2022-07-12 |
0.2.1 |
||
✨ Add last cell check to publish |
2022-07-11 |
|||
📝 Add header() call to every notebook |
2022-07-11 |
0.2.0 |
||
🚸 Add |
2022-07-11 |
|||
🚚 Migrated test submodule to |
2022-07-11 |
|||
🚚 Remove mention of footer, lock in publish |
2022-07-11 |
|||
📝 Add a nutshell tutorial to demo canonical workflow |
2022-07-10 |
|||
🚸 Turn |
2022-07-10 |
|||
✅ Improve coverage |
2022-07-10 |
|||
🚸 More intuitive API for updating pypackage store and writing it to file |
2022-07-09 |
|||
✨ Add a more convenient way of updating the pypackage store |
2022-07-09 |
|||
💄 Prettify logging during testing |
2022-07-09 |
|||
📝 Add a published notebook |
2022-07-05 |
|||
✅ Improve notebook testing API |
2022-07-03 |
0.1.6 |
||
✨ Publish notebooks from the CLI |
2022-07-01 |
|||
💄 Avoid non-JupyterLab env logging messages in CI env |
2022-07-01 |
0.1.5 |
||
✅ Execute notebooks in order of index |
2022-07-01 |
|||
💄 More compact logging and other small fixes |
2022-07-01 |
0.1.4 |
||
♻️ Refactor meta and header |
2022-07-01 |
|||
🚸 Polish publishing experience |
2022-07-01 |
0.1.3 |
||
🚸 Improve user experience during publishing |
2022-07-01 |
0.1.2 |
||
✨ Add VS Code integration |
2022-06-29 |
0.1.1 |
||
✨ Implement the publish function |
2022-06-29 |
|||
📝 Add proper guide |
2022-06-29 |
|||
📝 Prototype the |
2022-06-29 |
|||
✨ Take into account packages from store for live pypackages |
2022-06-29 |
|||
✨ Add field |
2022-06-29 |
|||
👷 Update coverage CI setup |
2022-06-26 |
|||
👷 Integrate Codecov to CI |
2022-06-26 |
|||
📝 Re-organize API documentation and clean up faq |
2022-06-24 |
0.1.0 |
||
♻️ Restructure dev submodule |
2022-06-23 |
0.1a3 |
||
🐛 Fix the case when a notebook filename is specified |
2022-06-23 |
0.1a2 |
||
♻️ Re-design package and introduce large parts of the API |
2022-06-21 |
0.1a1 |
||
🧑💻 Make CLI |
2022-06-12 |
|||
🩹 Always display pypackages pinned in the metadata |
2022-06-10 |
|||
💚 Remove server initialization from tests |
2022-06-09 |
|||
🏗️ Always infer & display pypackages |
2022-06-08 |
0.0.9 |
||
🩹 Fix |
2022-06-08 |
|||
✨ Expose title in |
2022-06-08 |
0.0.8 |
||
♻️ Rename |
2022-06-08 |
|||
✨ Infer pypackages on header import |
2022-06-07 |
|||
🏗️ Access metadata through API |
2022-06-06 |
|||
✨ Upon interactive init, auto-restart & run |
2022-06-04 |
|||
♻️ Replace nbformat with orjson everywhere |
2022-05-31 |
|||
⚡ Improve runtime for |
2022-05-23 |
|||
♻️ Proper treatment of jupyter magic commands |
2022-05-23 |
|||
💚 Safer pytest run |
2022-05-15 |
|||
✨ Add pypackages management |
2022-05-13 |
|||
✨ Project initialization with CLI |
2022-04-29 |
|||
🎨 Move all jupyter related functionality to one file |
2022-04-18 |
|||
🏗️ Metadata-aware tests |
2022-04-07 |
|||
🏗️ Metadata-aware tests (take 1) |
2022-04-07 |
|||
✨ Add |
2022-03-23 |
|||
💄 Display only 4 digits, use pydantic, autodetect filename |
2022-03-23 |
|||
📝 Update readme |
2022-03-23 |
bionty¶
Name |
PR |
Developer |
Date |
Version |
---|---|---|---|---|
🐛 Fixed id=name bug |
2022-12-09 |
0.5.7 |
||
♻️ Refactor version files |
2022-12-08 |
0.5.6 |
||
✨ Added ontology_info |
2022-12-01 |
|||
✨ Add readout to lookup |
2022-11-24 |
0.5.5 |
||
✨ Write most recent versions to |
2022-11-23 |
|||
🎨 Fetch the latest ontology from ols |
2022-11-22 |
|||
🚚 Moved readout from bioreadout into bionty |
2022-11-19 |
|||
✨ Added a local versions tracking file |
2022-11-18 |
|||
🐛 Fixed column id in curate |
2022-11-16 |
0.5.4 |
||
🩹 Removed prefix in ontology df |
2022-11-15 |
0.5.3 |
||
🎨 Default id to ontology_id |
2022-11-15 |
|||
🚚 Rename id to ontology_id for ontology df |
2022-11-11 |
0.5.2 |
||
⚡ Cache id and name for ontology |
2022-11-10 |
|||
🎨 Simplified ontology |
2022-11-10 |
|||
🐛 Fixed bug in tissue id |
2022-11-10 |
|||
⚡ Switch to cloudpath for caching |
2022-11-09 |
|||
⚡ Cache species table |
2022-11-06 |
0.5.1 |
||
📝 Link the species df to bionty-assets |
2022-10-25 |
0.5.0 |
||
🍱 Updated protein table |
2022-10-25 |
|||
🍱 Updated cell marker link |
2022-10-25 |
|||
🍱 Updated the species df path to use s3 |
2022-10-25 |
0.4.3 |
||
🍱 Updated gene table |
2022-10-25 |
|||
🚚 Migrated the tables to the new ids |
2022-10-24 |
0.4.2 |
||
🔥 Removed |
2022-10-20 |
0.4.1 |
||
💥 Redefine |
2022-10-12 |
0.4.0 |
||
🎨 Improve |
2022-10-11 |
0.3.2 |
||
🐛 Fix duplicated cell marker names |
2022-10-03 |
0.3.1 |
||
🍱 Added |
2022-09-27 |
0.3.0 |
||
🚚 Migrated dfs of gene, protein, cell marker to the lndb version |
2022-09-26 |
0.2.5 |
||
🚚 Rename guides to FAQ, tutorials to guide |
2022-09-05 |
|||
🔥 Remove cell_type, disease from lookup |
2022-08-29 |
0.2.4 |
||
🚚 Rename |
2022-08-28 |
0.2.3 |
||
🚚 Rename gene_symbol to symbol |
2022-08-28 |
0.2.2 |
||
🔥 Remove |
2022-08-28 |
|||
🎨 Fixed bugs in ontology class |
2022-08-28 |
0.2.1 |
||
🚚 Moved |
2022-08-27 |
|||
📝 Updated docs etc |
2022-08-27 |
|||
✅ Added more tests |
2022-08-27 |
|||
✨ Added |
2022-08-27 |
|||
✨ Added |
2022-08-26 |
0.2.0 |
||
🚚 Updated protein df, rename |
2022-08-26 |
|||
📝 Added lookup to the API ref |
2022-08-25 |
|||
🔊 Added |
2022-08-18 |
0.1.11 |
||
🚚 Rename gene_ids to gene_id |
2022-08-18 |
0.1.10 |
||
🎨 Migrate to ensembl gene reference |
2022-08-18 |
|||
🎨 Ensure |
2022-08-16 |
|||
⚡ Use display_name as common_name so that its unique |
2022-08-15 |
|||
🩹 Increased timeout |
2022-08-11 |
0.1.9 |
||
🩹 Modify |
2022-08-10 |
0.1.8 |
||
✨ Use pronto to access cell type ontology |
2022-08-08 |
0.1.7 |
||
🐛 Fixed duplicated index during curate |
2022-07-31 |
0.1.6 |
||
✨ Added |
2022-07-31 |
0.1.5 |
||
🔥 Removed duplicated code in lookup |
2022-07-28 |
0.1.4 |
||
✨ Added shortcuts for looking up static sets |
2022-07-28 |
0.1.3 |
||
🔥 Switched logger to use lamin-logger |
2022-07-23 |
|||
✨ Allow to input columns with non-standard names |
2022-07-11 |
0.1.2 |
||
✨ Maps alias when using gene symbols |
2022-07-06 |
|||
🎨 Added a developer API |
2022-07-02 |
0.1.1 |
||
✅ Add more tests for curation, rename |
2022-07-02 |
|||
♻️ Refactor curation |
2022-07-02 |
|||
📝 Prototype index standardization |
2022-07-02 |
|||
🎨 Polish APIs and tutorials |
2022-06-30 |
|||
✨ Added MGI for mouse genes, switched to use feather for HGNC |
2022-06-29 |
|||
🍱 Added back the Protein entity |
2022-06-29 |
|||
🚚 Move hard-to-test code from bionty into asset curation |
2022-06-28 |
|||
🏗️ Simplify Bionty |
2022-06-28 |
|||
🚸 Pull disease data from bionty-assets |
2022-06-27 |
|||
🚸 Replace HGNC file access with our S3 bucket |
2022-06-26 |
|||
✅ Added disease and tissue to quickstart |
2022-06-26 |
|||
👷 Update coverage setup |
2022-06-26 |
|||
✅ Collect coverage from test nbs |
2022-06-26 |
|||
💄 Added badges for build, codecov, pypi, pre-commit |
2022-06-25 |
|||
👷 Added Codecov to the build.yml |
2022-06-25 |
|||
📝 Iterate quickstart for better readability |
2022-06-24 |
|||
💥 Improved quickstart, implemented .dataclass everywhere |
2022-06-22 |
0.1.0 |
||
🔥 Remove versioneer |
2022-06-22 |
|||
⚡ Implemented pickling of dataclasses, refactored static class into |
2022-06-22 |
0.1a3 |
||
🚚 Renamed Celltype to CellType, fixed gene Entry fields |
2022-06-17 |
0.1a2 |
||
📝 Rewrite landing page and rename tasks |
2022-06-17 |
|||
✨ Added static class |
2022-06-16 |
|||
💄 Prettified ontology docstring |
2022-06-15 |
|||
🔨 |
2022-06-13 |
|||
♻️ Refactored |
2022-06-13 |
0.1a1 |
||
♻️ Refactored |
2022-06-13 |
|||
⚡ Speed up requests with |
2022-06-12 |
|||
💚 Fix docs build warnings/errors |
2022-06-10 |
|||
♻️ Refactored |
2022-06-10 |
|||
🚚 Rename |
2022-06-10 |
|||
🎨 Made |
2022-06-09 |
|||
✨ Propose new design of the entity APIs |
2022-06-07 |
|||
🐛 Fix |
2022-06-03 |
|||
🐛 Fix |
2022-06-03 |
|||
🎨 Implement an initial |
2022-06-02 |
|||
✨ Introduce |
2022-06-01 |
|||
✨ Introduce |
2022-06-01 |
|||
✨ Introduce |
2022-05-30 |
lnschema-bionty¶
Name |
PR |
Developer |
Date |
Version |
---|---|---|---|---|
🧪 Added test for ontology autopopulate |
2022-12-09 |
|||
✅ Add migrations test |
2022-12-08 |
|||
✨ Added bionty_version table |
2022-12-07 |
0.6.2 |
||
🎨 Updated bionty_versions |
2022-12-05 |
|||
✨ Added |
2022-11-18 |
0.6.1 |
||
🏗️ Introduce relationships, move Features table to core |
2022-11-17 |
0.6.0 |
||
⚡ Implemented knowledge as a decorator |
2022-11-11 |
0.5.4 |
||
✨ Added populator for ontologies |
2022-11-11 |
|||
♻️ Refactor knowledge population |
2022-11-06 |
|||
🐛 Fixed postgres migration script |
2022-11-06 |
0.5.3 |
||
✨ Use bionty to populate species |
2022-11-06 |
0.5.2 |
||
🐛 Fix prefix |
2022-11-03 |
0.5.1 |
||
🎨 Modularize and capitalize |
2022-11-03 |
0.5.0 |
||
🎨 Updated cell marker id gen |
2022-10-25 |
0.4.5 |
||
✏️ Updated species id to be 3 chars |
2022-10-24 |
0.4.4 |
||
🧑💻 Added naming convention |
2022-10-20 |
|||
🩹 Fix type annotations of primary keys |
2022-09-29 |
0.4.3 |
||
✏️ Changed ids to str |
2022-09-29 |
0.4.2 |
||
🍱 Added |
2022-09-27 |
0.4.1 |
||
🚚 Update primary keys to universal ids |
2022-09-22 |
0.4.0 |
||
🚚 Rename column in version table, add testdb, and migration script |
2022-09-22 |
0.3.1 |
||
✨ Add migrations infra |
2022-09-22 |
0.3.0 |
||
🩹 Added unique constraints |
2022-09-22 |
|||
🐛 Fixed API ref |
2022-09-06 |
0.2.4 |
||
🎨 Import additional modules, species -> species_id |
2022-08-28 |
0.2.3 |
||
🚚 Rename gene_symbol to symbol, protein_name to name |
2022-08-28 |
0.2.2 |
||
⬆️ Update schema to match bionty 0.2.0 |
2022-08-28 |
0.2.1 |
||
🚚 Rename |
2022-08-19 |
0.2.0 |
||
🔧 Add schema module id |
2022-08-18 |
|||
🍱 Updated the gene table to match new ensembl table |
2022-08-18 |
0.1.4 |
||
🎨 Changed type of |
2022-08-15 |
0.1.3 |
||
🚚 Move |
2022-07-31 |
|||
✨ Introduced featureset to replace geneset and proteinset |
2022-07-31 |
0.1.2 |
||
🎨 Changed |
2022-07-23 |
0.1.1 |
||
🚚 Move code from |
2022-07-23 |
0.1.0 |
lamindb¶
Name |
PR |
Developer |
Date |
Version |
---|---|---|---|---|
🐛 Fix bugs in |
2022-12-22 |
0.22.2 |
||
✅ Error behavior for ingest |
2022-12-20 |
|||
🎨 Simplify |
2022-12-16 |
|||
⬆️ Upgrade lndb-setup |
2022-12-16 |
0.22.1 |
||
🚸 Better CLI & logging |
2022-12-15 |
0.22.0 |
||
⬆️ Updated setup |
2022-12-15 |
0.21.5 |
||
🚸 Make |
2022-12-14 |
|||
⬆️ Upgrade wetlab |
2022-12-13 |
0.21.4 |
||
⬆️ Upgrade lndb-setup |
2022-12-13 |
0.21.3 |
||
⬆️ Upgrade lndb-setup |
2022-12-13 |
0.21.2 |
||
⬆️ Upgrade lndb-setup |
2022-12-12 |
0.21.1 |
||
📝 Fix docs |
2022-12-09 |
|||
🎨 Integrate |
2022-12-09 |
0.21.0 |
||
⬆️ Upgrade setup, core & wetlab schema |
2022-12-08 |
0.20.0 |
||
🔥 Drop all logic related to dynamic settings |
2022-12-08 |
|||
⬆️ Upgrade wetlab |
2022-12-06 |
0.19.4 |
||
⬆️ Upgrade wetlab |
2022-12-06 |
0.19.3 |
||
⬆️ Upgrade wetlab |
2022-12-06 |
0.19.2 |
||
🐛 Fix view |
2022-12-05 |
0.19.1 |
||
🎨 Enable inheriting wetlab schemas |
2022-12-05 |
0.19.0 |
||
✅ Better tests for features hashing |
2022-12-04 |
|||
⬆️ Upgrade lndb-setup |
2022-12-04 |
0.18.9 |
||
✨ Check duplication before inserting records |
2022-11-30 |
0.18.8 |
||
🚸 Do not autoflush upon select |
2022-11-30 |
0.18.7 |
||
🐛 Fix bug in schema module name lookup |
2022-11-29 |
|||
⬆️ Updated wetlab |
2022-11-29 |
0.18.6 |
||
⬆️ Upgrade |
2022-11-28 |
0.18.5 |
||
✨ Improve lazy selectors |
2022-11-28 |
|||
⬆️ Update wetlab schema |
2022-11-28 |
0.18.4 |
||
⬆️ Upgrade wetlab schema |
2022-11-28 |
0.18.3 |
||
⬆️ Upgrade |
2022-11-28 |
0.18.2 |
||
⬆️ Upgrade lndb-setup to 0.18.1 |
2022-11-25 |
|||
🔥 Removed bioreadout |
2022-11-24 |
0.18.1 |
||
✨ Add lazy selectors to |
2022-11-23 |
|||
🏗️ Persist the session |
2022-11-23 |
|||
⬆️ Upgrade lndb-setup |
2022-11-23 |
|||
✨ Add subset function for dobjects |
2022-11-23 |
0.18.0 |
||
🎨 Drop |
2022-11-22 |
|||
🎨 Simplify schema module handling |
2022-11-22 |
|||
📝 Bring back guide to linking sample-level metadata |
2022-11-21 |
0.17.0 |
||
📝 Add flow example back to main guide |
2022-11-21 |
|||
📝 Update schema |
2022-11-21 |
|||
🩹 Restore default |
2022-11-20 |
|||
🎨 Prettify API |
2022-11-18 |
|||
🐛 Also return existing features |
2022-11-18 |
|||
📝 Fix select gene doc |
2022-11-18 |
|||
🏗️ Refactor ingest |
2022-11-17 |
|||
✨ Knowledge guide |
2022-11-16 |
|||
🎨 Separate |
2022-11-16 |
0.16.0 |
||
🐛 Fix data source |
2022-11-15 |
|||
🚚 Move storage key to core schema |
2022-11-14 |
0.15.0 |
||
🐛 Fixed |
2022-11-14 |
|||
✨ Initialize |
2022-11-12 |
0.14.0 |
||
🏗️ Aggregate |
2022-11-12 |
|||
⬆️ Updated bionty |
2022-11-11 |
|||
📝 Make notebook for |
2022-11-11 |
0.13.0 |
||
✨ Join dataframes |
2022-11-10 |
|||
✨ Fields in join |
2022-11-10 |
|||
✅ Add tests for zarr ingest and load |
2022-11-10 |
|||
🚚 Rename |
2022-11-10 |
|||
🐛 Fix |
2022-11-09 |
0.12.1 |
||
🚚 Rename view arg |
2022-11-09 |
0.12.0 |
||
📝 Refactor select notebooks |
2022-11-08 |
|||
📝 Simplify arg in link |
2022-11-08 |
|||
♻️ Refactor select |
2022-11-08 |
|||
⬆️ Update to |
2022-11-06 |
|||
🚚 Rename entries to records in link |
2022-11-04 |
|||
📝 Improve guide |
2022-11-04 |
|||
🎨 Migrate to the new schema modules |
2022-11-04 |
0.11.0 |
||
🔥 Removed |
2022-11-03 |
|||
🎨 Removed |
2022-11-03 |
|||
🚚 Move |
2022-11-03 |
|||
🚚 Remove A prefix from notebooks |
2022-11-03 |
|||
✨ Storage related features |
2022-11-03 |
|||
🎨 Simplify generating records |
2022-11-02 |
|||
🐛 Fixed bug in linking features |
2022-11-01 |
|||
🍱 Added |
2022-11-01 |
|||
🚚 Rename |
2022-11-01 |
|||
🎨 Added LinkFeatureToKnowledgeTable |
2022-10-31 |
|||
⬆️ Update lndb setup |
2022-10-27 |
0.10.0 |
||
⬆️ Pinned bionty version |
2022-10-26 |
|||
⬆️ Updated to lnschema_bionty 0.4.4 |
2022-10-24 |
|||
🔥 Remove lndb-hub import |
2022-10-24 |
|||
✨ Enable to get metadata from |
2022-10-24 |
|||
📝 Rename row to record when not yet added to the DB |
2022-10-23 |
|||
⬆️ Update lndb hub version |
2022-10-23 |
|||
🎨 Replace |
2022-10-22 |
|||
⬆️ Upgrade |
2022-10-22 |
|||
📝 Update postgres faq notebook |
2022-10-22 |
|||
🚚 Moved the rds notebooks to |
2022-10-21 |
|||
✨ Added |
2022-10-21 |
|||
🔥 Remove hub import |
2022-10-21 |
|||
🎨 Overhaul |
2022-10-21 |
|||
🩹 Skip nc_evolutions table created by nocodb |
2022-10-21 |
|||
✨ Added |
2022-10-20 |
|||
⬆️ Upgrade wetlab schema |
2022-10-20 |
0.9.6 |
||
⬆️ Added |
2022-10-19 |
0.9.5 |
||
🩹 Fixed rds nbs |
2022-10-18 |
|||
📝 Add prisma examples and implementation ideas |
2022-10-18 |
|||
♻️ Refactor linked select |
2022-10-18 |
0.9.4 |
||
✏️ Fix typo in link table entry fetching |
2022-10-17 |
|||
🐛 Fixed link via link tables |
2022-10-15 |
0.9.3 |
||
✨ Add an option to use |
2022-10-15 |
|||
✨ Load returns filepath if no in-memory format is found |
2022-10-13 |
0.9.2 |
||
🎨 Clean up dtransform_in |
2022-10-13 |
0.9.1 |
||
🎨 Continue overhaul |
2022-10-13 |
0.9.0 |
||
🎨 Refactor linking dobjects & base64 encode checksum |
2022-10-13 |
|||
🐛 View only prints existing tables |
2022-10-12 |
|||
✨ Added |
2022-10-12 |
0.8.3 |
||
⬆️ Added bioreadout lookup to guide |
2022-10-12 |
|||
🚚 Rename query to select |
2022-10-12 |
|||
🩹 Fix out of sync db warning |
2022-10-12 |
|||
✨ Add streaming zarr write and streaming h5ad and zarr read |
2022-10-12 |
|||
💄 Cosmetics |
2022-10-12 |
|||
♻️ Refactor ingest & insert |
2022-10-11 |
|||
✨ Compute checksum during ingest |
2022-10-11 |
|||
🚚 Moved bfx ingestion to faq |
2022-10-11 |
|||
⬆️ Upgrade to |
2022-10-10 |
0.8.2 |
||
📝 Improved ingest guides, fixed linked entry bugs |
2022-10-10 |
|||
🐛 Fixed dobject_biometa entry insertion |
2022-10-10 |
0.8.1 |
||
📝 Update test users in docs |
2022-10-10 |
|||
⬆️ Upgrade |
2022-10-10 |
0.8.0 |
||
🎨 |
2022-10-10 |
|||
⬆️ Upgrade |
2022-10-10 |
|||
⬆️ Upgrade |
2022-10-10 |
|||
📝 Improved docs of |
2022-10-10 |
0.7.2 |
||
💥 Refactor |
2022-10-08 |
0.7.1 |
||
📝 Overhauled get-started |
2022-10-07 |
|||
🚸 Check for existence before deletion |
2022-10-07 |
|||
🎨 Make ingest a static class |
2022-10-07 |
0.7.0 |
||
⬆️ Upgrade to core schema 0.10.0 |
2022-10-07 |
|||
✨ New ingest API |
2022-10-05 |
0.6.0 |
||
📝 Overhaul documentation |
2022-10-05 |
|||
🔧 Update lndb setup to 0.9.4 |
2022-10-04 |
|||
🔧 Enable setup outside cli |
2022-10-04 |
|||
⬆️ Upgrade lndb_setup and bionty |
2022-10-03 |
0.5.0 0.5.0 |
||
🚸 Check for migrations upon import |
2022-10-03 |
|||
🔊 Raise warnings for unpopulated columns from insert.from_df |
2022-10-03 |
|||
⬆️ Upgrade |
2022-10-03 |
|||
♻️ Inherit |
2022-10-01 |
0.4.1 |
||
⬆️ Upgrade to lnschema_core 0.9.0 |
2022-09-30 |
|||
🎨 Add type annotation to ingest |
2022-09-30 |
|||
♻️ Generalize pipeline ingestion |
2022-09-30 |
|||
✨ Added |
2022-09-29 |
|||
🎨 Get db metadata as a dictionary |
2022-09-29 |
|||
🎨 Added |
2022-09-29 |
|||
⬆️ Upgrade pkg versions |
2022-09-29 |
|||
🚸 Test notebook integrity before anything else |
2022-09-26 |
|||
📝 Add a quickstart & update ingest |
2022-09-26 |
|||
📝 Update bfx ingestion demo |
2022-09-26 |
|||
🚚 Rename insert.features to insert.featureset_from_features |
2022-09-26 |
|||
📝 Polish documentation |
2022-09-26 |
|||
✨ Populate |
2022-09-26 |
|||
🚸 Sort select results in DataFrame by source |
2022-09-25 |
|||
⬆️ Upgrade to core schema 0.7.3 |
2022-09-25 |
|||
🩹 Removed logging for inserting link tables |
2022-09-24 |
|||
✨ Ingest bfx outputs with sample metadata |
2022-09-24 |
|||
👷 Improve notebook test function |
2022-09-23 |
|||
🧱 Improved code infra |
2022-09-23 |
0.4.0 |
||
✨ Account for multiple |
2022-09-23 |
|||
♻️ Refactored feature model ingestion |
2022-09-23 |
|||
♻️ Refactored insert |
2022-09-22 |
|||
⬆️ Upgrade |
2022-09-22 |
|||
⬆️ Upgrade to core schema 0.7.2 |
2022-09-21 |
|||
🚑 |
2022-09-21 |
0.3.11 |
||
🐛 Fixed column mapping |
2022-09-19 |
0.3.10 |
||
✨ Allow batch insertion |
2022-09-19 |
|||
♻️ Refactored linked queries |
2022-09-15 |
|||
⬆️ Update lnbfx to 0.3.5 |
2022-09-14 |
0.3.9 |
||
🔊 Refactor pipeline logging |
2022-09-14 |
0.3.8 |
||
✨ Insert unmapped features |
2022-09-14 |
|||
♻️ Refactored linked queries |
2022-09-13 |
|||
⬆️ Updated wetlab schema |
2022-09-13 |
|||
♻️ Refactor pipeline logging |
2022-09-13 |
0.3.7 |
||
⬆️ Updated lnbfx version |
2022-09-12 |
0.3.6 |
||
🍱 Updated cell ranger test dir |
2022-09-12 |
|||
🐛 Fix synchronization error in load |
2022-09-12 |
|||
⬆️ Updated setup version |
2022-09-08 |
0.3.5 |
||
♻️ Split ingestion logic into IngestObject and IngestPipeline |
2022-09-06 |
|||
📝 Add flow data ingestion example |
2022-09-06 |
|||
💄 Added sidebar to guide |
2022-09-06 |
|||
♻️ Split pipeline ingestion from non-pipeline ingestion |
2022-09-06 |
|||
⬆️ Updated schema module versions |
2022-09-06 |
|||
♻️ Refactored |
2022-09-05 |
|||
🚚 Rename |
2022-09-05 |
|||
🚚 Rename |
2022-09-05 |
|||
♻️ Refactored guide |
2022-09-03 |
|||
📝 Prettify documentation |
2022-09-02 |
|||
Update lndb_hub version |
2022-09-01 |
|||
✨ Allow selecting dobjects by biological entities |
2022-09-01 |
0.3.4 |
||
⬆️ Update to sqm 0.0.8 to silence the warnings |
2022-08-30 |
|||
🤡 R&D team simulation |
2022-08-30 |
|||
🚸 Fix pipeline ingestion logging |
2022-08-30 |
|||
🚚 Move problems page to lamin-profile |
2022-08-30 |
|||
🩹 Uncomment out sharing tests |
2022-08-30 |
|||
🔥 Removed examples dir |
2022-08-30 |
|||
🚸 Improve delete function |
2022-08-30 |
|||
🎨 Remove |
2022-08-29 |
|||
🚚 Rename |
2022-08-29 |
|||
🎨 Move header call to |
2022-08-29 |
|||
👷 Get rid of sqm warnings |
2022-08-29 |
|||
🎨 Simplify loading data |
2022-08-29 |
|||
👷 Allow stripping notebooks, upgrade |
2022-08-29 |
0.3.3 |
||
✨ Use |
2022-08-28 |
|||
⬆️ Updated to bionty 0.2.2 |
2022-08-28 |
|||
⬆️ Updated to sqm 0.0.7 |
2022-08-28 |
|||
⬆️ Updated dependencies |
2022-08-28 |
|||
⬆️ Upgrade to |
2022-08-26 |
|||
♻️ Update pipeline ingestion to |
2022-08-26 |
|||
🍱 Add scrnaseq cellranger dataset |
2022-08-26 |
|||
🐛 Fix population of |
2022-08-26 |
|||
✨ Populate |
2022-08-26 |
|||
⬆️ Updated dependencies |
2022-08-26 |
0.3.2 |
||
♻️ Refactor |
2022-08-26 |
|||
🚧 Temporary solution to extend modules |
2022-08-25 |
0.3.1 |
||
🏗️ Make tables within schema modules configurable |
2022-08-25 |
0.3.0 |
||
✏️ Fixed typo in check versions |
2022-08-24 |
|||
🏗️ Use id to reference storage |
2022-08-23 |
|||
🚚 Renamed |
2022-08-23 |
|||
⬆️ Upgrade to lnbfx 0.2.0 |
2022-08-23 |
|||
🚚 Renamed |
2022-08-23 |
|||
♻️ Cleaned up and added a mouse dataset |
2022-08-23 |
|||
⬆️ Upgrade lndb-hub to v0.5.0 |
2022-08-23 |
|||
💄 Added logging to update and delete |
2022-08-22 |
|||
✨ Autogenerate |
2022-08-22 |
|||
⬆️ Upgrade core schema to v0.4.0 |
2022-08-22 |
|||
✨ Track storage root location |
2022-08-22 |
|||
🚚 Rename schema modules and bioinformatics module |
2022-08-19 |
|||
✨ Integrate bioinformatics pipline runs |
2022-08-18 |
|||
📝 Updated docs |
2022-08-18 |
|||
👽 Adapt to |
2022-08-18 |
|||
⚡ Ingest genes properly |
2022-08-16 |
|||
✨ New readout table, registered species |
2022-08-12 |
|||
🚚 Migrate |
2022-08-04 |
|||
⬆️ Upgrade to lndb_setup 0.5.0 |
2022-08-03 |
|||
⬆️ Upgrade to |
2022-08-03 |
|||
🚚 Renamed |
2022-08-03 |
|||
👷 Cleaner CI environment switching |
2022-08-02 |
0.2.1 |
||
⬆️ Upgrade to |
2022-08-02 |
0.2.0 |
||
📝 Polish the |
2022-08-02 |
|||
📝 Polish the 4 key tutorial pages |
2022-08-02 |
|||
📝 Polish |
2022-08-01 |
|||
✨ Allow ingesting fcs files and selecting genes |
2022-08-01 |
|||
📝 Prettify user mentions in guide & faq |
2022-08-01 |
|||
⬆️ Upgrade to |
2022-08-01 |
|||
🎨 Overhauled guide, renamed |
2022-08-01 |
|||
🩹 Some fixes of ingesting in-memory dobjects and an analysis draft |
2022-07-31 |
|||
✨ Select and update metadata |
2022-07-31 |
|||
📝 Add a problem statement |
2022-07-31 |
|||
⬆️ Upgrade to |
2022-07-31 |
|||
🚧 Annotate features during ingestion |
2022-07-31 |
|||
📝 Re-write landing page |
2022-07-30 |
|||
📝 Improve |
2022-07-30 |
|||
⬆️ Upgrade to |
2022-07-29 |
|||
🚚 Move out |
2022-07-29 |
|||
♻️ Refactor sharing on the hub |
2022-07-29 |
|||
✨ Enable sharing dobjects & instances in the hub |
2022-07-29 |
|||
🔥 Moved readout vocab to bioreader |
2022-07-28 |
|||
⬆️ Upgrade |
2022-07-26 |
|||
⬆️ Upgrade to lndb-cli 0.2.0 |
2022-07-25 |
|||
🚚 Account for table construction in lndb-cli |
2022-07-25 |
|||
🚚 Move CLI code to |
2022-07-24 |
|||
🍱 Adapted to |
2022-07-24 |
|||
🚸 Let the CLI have actual subcommands |
2022-07-24 |
|||
👷 Add time out to GitHub Actions |
2022-07-23 |
|||
🔥 Switched logger to use lamin-utils |
2022-07-23 |
|||
✨ Annotate biometa when annotating genes |
2022-07-23 |
|||
🔼 Upgrade to schema 0.2.1 |
2022-07-23 |
|||
🎨 Use modular schema structure |
2022-07-22 |
|||
🚚 Move db API from admin to dev |
2022-07-22 |
|||
✨ Enable annotating features of dobjects |
2022-07-22 |
|||
🚸 Offer manual way of completing a migration |
2022-07-22 |
|||
🏗️ Separate settings into user vs. instance and one file per instance |
2022-07-22 |
|||
🐛 Fix loading of multi-index and non-id tables |
2022-07-21 |
0.1.2 |
||
🚚 Rename table |
2022-07-21 |
|||
🚚 Move version check into correct init |
2022-07-20 |
|||
⬆️ Fix the publishing call by upgrading to nbproject 0.4.3 |
2022-07-19 |
0.1.1 |
||
✨ Add |
2022-07-19 |
0.1.0 |
||
🚚 Rename |
2022-07-17 |
|||
🚚 Migrate schema out to |
2022-07-17 |
|||
✨ Version dobjects and interfaces |
2022-07-16 |
|||
💄 Pretty logging |
2022-07-15 |
|||
✨ Add |
2022-07-14 |
|||
📝 Add an example of ingesting images |
2022-07-12 |
|||
⬆️ Upgrade to nbproject 0.2.1 |
2022-07-12 |
|||
🐛 Fix bug |
2022-07-12 |
|||
📝 Added example notebook for ingesting fcs files |
2022-07-11 |
|||
⬆️ Migrate to nbproject 0.2.0 |
2022-07-11 |
|||
🚸 Auto-check integrity upon data ingestion only on Jupyter Lab |
2022-07-09 |
0.0.9 |
||
🚚 Rename |
2022-07-09 |
|||
🚸 Raise error upon multiple sign ups with same unconfirmed email |
2022-07-09 |
|||
✨ Allow sharing instances with other users |
2022-07-08 |
|||
🏗️ Improve configuration logic, flow, logging & testing |
2022-07-08 |
|||
✨ Populate user metadata at sign up |
2022-07-07 |
|||
✨ Unique user identity across instances |
2022-07-06 |
|||
🚧 Enable storing sqlite on S3 |
2022-07-04 |
0.0.8 |
||
🚚 Rename table |
2022-07-04 |
|||
🚚 Rename CLI from |
2022-07-04 |
|||
✨ Add |
2022-07-03 |
0.0.7 |
||
♻️ Refactor file storage |
2022-07-03 |
0.0.6 |
||
♻️ Refactor settings |
2022-07-02 |
0.0.5 |
||
👷 Switch to nbproject tests & clean up logging |
2022-07-01 |
|||
✨ Use nbproject publish functionality |
2022-07-01 |
|||
🚚 Rename tutorial to guide |
2022-06-29 |
|||
👷 Measure coverage |
2022-06-26 |
|||
🏗️ Settings: From pydantic BaseModel to custom class |
2022-06-25 |
|||
🏗️ Complete refactor of setup, settings & storage management |
2022-06-25 |
|||
⬆️ Upgrade to nbproject 0.1a3 |
2022-06-23 |
|||
📝 One-page layout for data models |
2022-06-14 |
|||
♻️ More explicit |
2022-06-14 |
|||
♻️ Migrate from sql to sqm everywhere |
2022-06-14 |
|||
✨ Implement data access log |
2022-06-12 |
0.0.4 |
||
🏗️ Re-organize API |
2022-06-12 |
|||
🏗️ Set up db with sqlmodel, test int ids |
2022-06-11 |
|||
🏗️ Re-designed entire API |
2022-06-10 |
|||
🔥 Remove notion integration up to CLI |
2022-06-10 |
|||
📝 Rename from lamindb to LaminDB & rewrite the landing page |
2022-06-10 |
0.0.3 |
||
🏗️ Introduce field |
2022-06-09 |
|||
🚚 Rename global |
2022-06-09 |
|||
✨ Track python package dependencies in |
2022-06-09 |
|||
✨ Track title of ingesting notebook in |
2022-06-09 |
|||
🐛 Fix user & notebook ingestion, add another test dataset |
2022-06-08 |
|||
✅ Fix pandas load, add tests |
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✨ Add introspection: |
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✨ Add entity |
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🚸 Auto-create local storage dir & cache dir |
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✅ Add a test for db creation & file ingestion |
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🏗️ Name the database file like the storage root directory |
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♻️ Refactor |
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🔧 Refactor |
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🔥 Remove versioneer |
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👷 Track changes as in |
2022-06-07 |
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🏗️ Basic file ingestion from a notebook |
2022-06-06 |
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🔥 Remove |
2022-06-04 |
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📄 Change format of license file |
2022-05-23 |
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📝 Fix faq link |
2022-05-26 |
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♻️ Update to cookiecutter 0.2.0 |
2022-05-23 |
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💄 More narrow sidebar |
2022-05-11 |
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💄 Switch |
2022-05-11 |
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📝 Polish the documentation |
2022-05-11 |
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🚚 Migrated from |