lamindb 1.11a1__py3-none-any.whl → 1.11.2__py3-none-any.whl

lamindb-1.11a1.dist-info/METADATA

@@ -1,144 +0,0 @@
-Metadata-Version: 2.3
-Name: lamindb
-Version: 1.11a1
-Summary: A data framework for biology.
-Author-email: Lamin Labs <open-source@lamin.ai>
-Requires-Python: >=3.10,<3.14
-Description-Content-Type: text/markdown
-Classifier: Programming Language :: Python :: 3.10
-Classifier: Programming Language :: Python :: 3.11
-Classifier: Programming Language :: Python :: 3.12
-Classifier: Programming Language :: Python :: 3.13
-Requires-Dist: lamin_utils==0.15.0
-Requires-Dist: lamin_cli==1.7.0
-Requires-Dist: lamindb_setup[aws]==1.10.0
-Requires-Dist: pyyaml
-Requires-Dist: pyarrow
-Requires-Dist: pandera>=0.24.0
-Requires-Dist: typing_extensions!=4.6.0
-Requires-Dist: python-dateutil
-Requires-Dist: pandas>=2.0.0
-Requires-Dist: scipy<1.15.0
-Requires-Dist: anndata>=0.8.0,<=0.12.1
-Requires-Dist: fsspec
-Requires-Dist: graphviz
-Requires-Dist: psycopg2-binary
-Requires-Dist: bionty>=1.6.1rc1 ; extra == "bionty"
-Requires-Dist: clinicore>=1.2.1 ; extra == "clinicore"
-Requires-Dist: tomlkit ; extra == "dev"
-Requires-Dist: line_profiler ; extra == "dev"
-Requires-Dist: pre-commit ; extra == "dev"
-Requires-Dist: nox ; extra == "dev"
-Requires-Dist: laminci>=0.3 ; extra == "dev"
-Requires-Dist: pytest>=6.0 ; extra == "dev"
-Requires-Dist: coverage ; extra == "dev"
-Requires-Dist: pytest-cov ; extra == "dev"
-Requires-Dist: mudata ; extra == "dev"
-Requires-Dist: nbproject_test>=0.6.0 ; extra == "dev"
-Requires-Dist: faker-biology ; extra == "dev"
-Requires-Dist: pronto ; extra == "dev"
-Requires-Dist: readfcs>=2.0.1 ; extra == "fcs"
-Requires-Dist: lamindb_setup[gcp] ; extra == "gcp"
-Requires-Dist: nbproject==0.11.1 ; extra == "jupyter"
-Requires-Dist: jupytext ; extra == "jupyter"
-Requires-Dist: nbconvert>=7.2.1 ; extra == "jupyter"
-Requires-Dist: mistune!=3.1.0 ; extra == "jupyter"
-Requires-Dist: wetlab>=1.3.1 ; extra == "wetlab"
-Requires-Dist: numcodecs<0.16.0 ; extra == "zarr"
-Requires-Dist: zarr>=2.16.0,<3.0.0a0 ; extra == "zarr"
-Project-URL: Home, https://github.com/laminlabs/lamindb
-Provides-Extra: bionty
-Provides-Extra: clinicore
-Provides-Extra: dev
-Provides-Extra: fcs
-Provides-Extra: gcp
-Provides-Extra: jupyter
-Provides-Extra: wetlab
-Provides-Extra: zarr
-
-[![Stars](https://img.shields.io/github/stars/laminlabs/lamindb?logo=GitHub)](https://github.com/laminlabs/lamindb)
-[![codecov](https://codecov.io/gh/laminlabs/lamindb/branch/main/graph/badge.svg?token=VKMRJ7OWR3)](https://codecov.io/gh/laminlabs/lamindb)
-[![Docs](https://img.shields.io/badge/docs-humans-yellow)](https://docs.lamin.ai)
-[![DocsLLMs](https://img.shields.io/badge/docs-LLMs-yellow)](https://docs.lamin.ai/summary.md)
-[![pypi](https://img.shields.io/pypi/v/lamindb?color=blue&label=pypi%20package)](https://pypi.org/project/lamindb)
-[![PyPI Downloads](https://img.shields.io/pepy/dt/lamindb?logo=pypi)](https://pepy.tech/project/lamindb)
-
-# LaminDB - A data framework for biology
-
-<!-- first two sentences sync from preface.md -->
-
-LaminDB is an open-source data framework to enable learning at scale in computational biology.
-It lets you track data transformations, validate & annotate datasets, and query a built-in database for biological metadata & data structures.
-
-## Setup
-
-<!-- copied from quick-setup-lamindb.md -->
-
-Install the `lamindb` Python package:
-
-```shell
-pip install 'lamindb[jupyter,bionty]'  # support notebooks & biological ontologies
-```
-
-Create a LaminDB instance:
-
-```shell
-lamin init --storage ./quickstart-data  # or s3://my-bucket, gs://my-bucket
-```
-
-Or if you have write access to an instance, connect to it:
-
-```shell
-lamin connect account/name
-```
-
-## Quickstart
-
-<!-- copied from preface.md -->
-
-Track a script or notebook run with source code, inputs, outputs, logs, and environment.
-
-<!-- copied from py-quickstart.py -->
-
-```python
-import lamindb as ln
-
-ln.track()  # track a run
-open("sample.fasta", "w").write(">seq1\nACGT\n")
-ln.Artifact("sample.fasta", key="sample.fasta").save()  # create an artifact
-ln.finish()  # finish the run
-```
-
-<!-- from here on, slight deviation from preface.md, where all this is treated in the walk through in more depth -->
-
-Running this code inside a script via `python create-fasta.py` produces the following data lineage.
-
-```python
-artifact = ln.Artifact.get(key="sample.fasta")  # query artifact by key
-artifact.view_lineage()
-```
-
-<img src="https://lamin-site-assets.s3.amazonaws.com/.lamindb/EkQATsQL5wqC95Wj0003.png" width="220">
-
-You'll know how that artifact was created.
-
-```python
-artifact.describe()
-```
-
-<img src="https://lamin-site-assets.s3.amazonaws.com/.lamindb/BOTCBgHDAvwglN3U0001.png" width="850">
-
-Conversely, you can query artifacts by the script that created them.
-
-```python
-ln.Artifact.get(transform__key="create-fasta.py")  # query artifact by transform key
-```
-
-Data lineage is just one type of metadata to help analysis and model training through queries, validation, and annotation. Here is a more [comprehensive example](https://lamin.ai/laminlabs/lamindata/artifact/fgKBV8qdSnbIga0i).
-
-<img src="https://lamin-site-assets.s3.amazonaws.com/.lamindb/6sofuDVvTANB0f480001.png" width="850">
-
-## Docs
-
-Copy [summary.md](https://docs.lamin.ai/summary.md) into an LLM chat and let AI explain or read the [docs](https://docs.lamin.ai).
-