lamindb 1.11a1__tar.gz → 1.11.1__tar.gz

{lamindb-1.11a1 → lamindb-1.11.1}/.gitignore

@@ -66,7 +66,9 @@ run-tests
 test-django-validation/
 curate.tiledbsoma
 small_dataset.tiledbsoma
+nonregistered_storage
 registered_storage
+tests/core/notebooks/no-uid-renamed.ipynb
 
 # General
 .DS_Store

{lamindb-1.11a1 → lamindb-1.11.1}/.gitmodules

@@ -10,9 +10,6 @@
 [submodule "sub/wetlab"]
 	path = sub/wetlab
 	url = https://github.com/laminlabs/wetlab
-[submodule "sub/clinicore"]
-	path = sub/clinicore
-	url = https://github.com/laminlabs/clinicore
 [submodule "sub/cellxgene-lamin"]
 	path = sub/cellxgene-lamin
 	url = https://github.com/laminlabs/cellxgene-lamin.git

{lamindb-1.11a1 → lamindb-1.11.1}/.pre-commit-config.yaml

@@ -68,5 +68,6 @@ repos:
               tests/writelog/conftest.py|
               tests/writelog_sqlite/conftest.py|
               tests/curators/test_curators_examples.py|
-              tests/core/conftest.py
+              tests/core/conftest.py|
+              docs/scripts/
           )

{lamindb-1.11a1 → lamindb-1.11.1}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.3
 Name: lamindb
-Version: 1.11a1
+Version: 1.11.1
 Summary: A data framework for biology.
 Author-email: Lamin Labs <open-source@lamin.ai>
 Requires-Python: >=3.10,<3.14
@@ -10,8 +10,14 @@ 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: lamin_cli==1.7.1
+Requires-Dist: lamindb_setup[aws]==1.10.1
+Requires-Dist: bionty>=1.7a1
+Requires-Dist: wetlab>=1.5a1
+Requires-Dist: nbproject==0.11.1
+Requires-Dist: jupytext
+Requires-Dist: nbconvert>=7.2.1
+Requires-Dist: mistune!=3.1.0
 Requires-Dist: pyyaml
 Requires-Dist: pyarrow
 Requires-Dist: pandera>=0.24.0
@@ -23,8 +29,6 @@ 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"
@@ -32,28 +36,19 @@ 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: pytest-cov<7.0.0 ; 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)
@@ -77,7 +72,7 @@ It lets you track data transformations, validate & annotate datasets, and query
 Install the `lamindb` Python package:
 
 ```shell
-pip install 'lamindb[jupyter,bionty]'  # support notebooks & biological ontologies
+pip install lamindb
 ```
 
 Create a LaminDB instance:
@@ -134,7 +129,7 @@ Conversely, you can query artifacts by the script that created them.
 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).
+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/9K1dteZ6Qx0EXK8g).
 
 <img src="https://lamin-site-assets.s3.amazonaws.com/.lamindb/6sofuDVvTANB0f480001.png" width="850">
 

{lamindb-1.11a1 → lamindb-1.11.1}/README.md

@@ -19,7 +19,7 @@ It lets you track data transformations, validate & annotate datasets, and query
 Install the `lamindb` Python package:
 
 ```shell
-pip install 'lamindb[jupyter,bionty]'  # support notebooks & biological ontologies
+pip install lamindb
 ```
 
 Create a LaminDB instance:
@@ -76,7 +76,7 @@ Conversely, you can query artifacts by the script that created them.
 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).
+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/9K1dteZ6Qx0EXK8g).
 
 <img src="https://lamin-site-assets.s3.amazonaws.com/.lamindb/6sofuDVvTANB0f480001.png" width="850">
 

{lamindb-1.11a1 → lamindb-1.11.1}/docs/api.md

@@ -1,4 +1,4 @@
-# API
+# API Reference
 
 <meta http-equiv="Refresh" content="0; url=./lamindb.html" />
 
@@ -18,5 +18,4 @@ lamindb
 
 bionty
 wetlab
-clinicore
 ```

{lamindb-1.11a1 → lamindb-1.11.1}/docs/curate.ipynb

@@ -955,13 +955,88 @@
    "id": "73",
    "metadata": {},
    "source": [
-    "## MuData"
+    "## Unstructured dictionaries"
    ]
   },
   {
    "cell_type": "markdown",
    "id": "74",
    "metadata": {},
+   "source": [
+    "Most datastructures support unstructured metadata stored as dictionaries:\n",
+    "\n",
+    "- Pandas DataFrames: `.attrs`\n",
+    "- AnnData: `.uns`\n",
+    "- MuData: `.uns` and `modality:uns`\n",
+    "- SpatialData: `.attrs`\n",
+    "\n",
+    "Here, we exemplary show how to curate such metadata for AnnData:"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "id": "75",
+   "metadata": {},
+   "source": [
+    "```{eval-rst}\n",
+    ".. literalinclude:: scripts/define_schema_anndata_uns.py\n",
+    "   :language: python\n",
+    "   :caption: define_schema_anndata_uns.py\n",
+    "```"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "id": "76",
+   "metadata": {
+    "tags": [
+     "hide-output"
+    ]
+   },
+   "outputs": [],
+   "source": [
+    "!python scripts/define_schema_anndata_uns.py"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "id": "77",
+   "metadata": {},
+   "source": [
+    "```{eval-rst}\n",
+    ".. literalinclude:: scripts/curate_anndata_uns.py\n",
+    "   :language: python\n",
+    "   :caption: curate_anndata_uns.py\n",
+    "```"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "id": "78",
+   "metadata": {
+    "tags": [
+     "hide-output"
+    ]
+   },
+   "outputs": [],
+   "source": [
+    "!python scripts/curate_anndata_uns.py"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "id": "79",
+   "metadata": {},
+   "source": [
+    "## MuData"
+   ]
+  },
+  {
+   "cell_type": "markdown",
+   "id": "80",
+   "metadata": {},
    "source": [
     "```{eval-rst}\n",
     ".. literalinclude:: scripts/curate_mudata.py\n",
@@ -973,7 +1048,7 @@
   {
    "cell_type": "code",
    "execution_count": null,
-   "id": "75",
+   "id": "81",
    "metadata": {
     "tags": [
      "hide-output"
@@ -986,7 +1061,7 @@
   },
   {
    "cell_type": "markdown",
-   "id": "76",
+   "id": "82",
    "metadata": {},
    "source": [
     "## SpatialData"
@@ -994,7 +1069,7 @@
   },
   {
    "cell_type": "markdown",
-   "id": "77",
+   "id": "83",
    "metadata": {},
    "source": [
     "```{eval-rst}\n",
@@ -1007,7 +1082,7 @@
   {
    "cell_type": "code",
    "execution_count": null,
-   "id": "78",
+   "id": "84",
    "metadata": {
     "tags": [
      "hide-output"
@@ -1020,7 +1095,7 @@
   },
   {
    "cell_type": "markdown",
-   "id": "79",
+   "id": "85",
    "metadata": {},
    "source": [
     "```{eval-rst}\n",
@@ -1033,7 +1108,7 @@
   {
    "cell_type": "code",
    "execution_count": null,
-   "id": "80",
+   "id": "86",
    "metadata": {
     "tags": [
      "hide-output"
@@ -1046,7 +1121,7 @@
   },
   {
    "cell_type": "markdown",
-   "id": "81",
+   "id": "87",
    "metadata": {},
    "source": [
     "## TiledbsomaExperiment"
@@ -1054,7 +1129,7 @@
   },
   {
    "cell_type": "markdown",
-   "id": "82",
+   "id": "88",
    "metadata": {},
    "source": [
     "```{eval-rst}\n",
@@ -1067,7 +1142,7 @@
   {
    "cell_type": "code",
    "execution_count": null,
-   "id": "83",
+   "id": "89",
    "metadata": {
     "tags": [
      "hide-output"
@@ -1080,7 +1155,7 @@
   },
   {
    "cell_type": "markdown",
-   "id": "84",
+   "id": "90",
    "metadata": {},
    "source": [
     "## Other data structures"
@@ -1088,7 +1163,7 @@
   },
   {
    "cell_type": "markdown",
-   "id": "85",
+   "id": "91",
    "metadata": {},
    "source": [
     "If you have other data structures, read: {doc}`/faq/curate-any`."
@@ -1097,7 +1172,7 @@
   {
    "cell_type": "code",
    "execution_count": null,
-   "id": "86",
+   "id": "92",
    "metadata": {
     "tags": [
      "hide-cell"

{lamindb-1.11a1 → lamindb-1.11.1}/docs/faq/acid.ipynb

@@ -23,7 +23,7 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "# !pip install 'lamindb[jupyter,aws]'\n",
+    "# pip install lamindb\n",
     "from laminci.db import setup_local_test_postgres\n",
     "\n",
     "pgurl = setup_local_test_postgres()"

{lamindb-1.11a1 → lamindb-1.11.1}/docs/faq/idempotency.ipynb

@@ -43,7 +43,7 @@
    },
    "outputs": [],
    "source": [
-    "# pip install 'lamindb[jupyter]'\n",
+    "# pip install lamindb\n",
     "!lamin init --storage ./test-idempotency"
    ]
   },

{lamindb-1.11a1 → lamindb-1.11.1}/docs/faq/keep-artifacts-local.ipynb

@@ -47,10 +47,10 @@
    },
    "outputs": [],
    "source": [
-    "# pip install 'lamindb[jupyter]'\n",
+    "# pip install lamindb\n",
     "import lamindb as ln\n",
     "\n",
-    "ln.track(\"l9lFf83aPwRc0000\")"
+    "ln.track(\"l9lFf83aPwRc\")"
    ]
   },
   {

{lamindb-1.11a1 → lamindb-1.11.1}/docs/faq/setup.ipynb

@@ -30,7 +30,7 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "# pip install 'lamindb[jupyter]'\n",
+    "# pip install lamindb\n",
     "import lamindb as ln\n",
     "import pytest"
    ]

{lamindb-1.11a1 → lamindb-1.11.1}/docs/faq/track-run-inputs.ipynb

@@ -26,7 +26,7 @@
    },
    "outputs": [],
    "source": [
-    "# !pip install 'lamindb[jupyter]'\n",
+    "# pip install lamindb\n",
     "!lamin init --storage test-run-inputs"
    ]
   },

{lamindb-1.11a1 → lamindb-1.11.1}/docs/includes/installation.md

@@ -7,15 +7,12 @@ pip install lamindb
 You can configure the installation using `extras`, e.g.,
 
 ```shell
-pip install 'lamindb[jupyter,bionty]'
+pip install 'lamindb[gcp]'
 ```
 
 Supported `extras` are:
 
 ```yaml
-# commonly used
-jupyter   # parse Jupyter notebook metadata
-bionty    # basic biological ontologies
 # cloud backends (AWS is assumed)
 gcp       # Google Cloud (gcfs, etc.)
 # biological artifact formats

lamindb-1.11.1/docs/scripts/curate_anndata_uns.py

@@ -0,0 +1,9 @@
+import lamindb as ln
+
+ln.core.datasets.mini_immuno.define_features_labels()
+adata = ln.core.datasets.mini_immuno.get_dataset1(otype="AnnData")
+schema = ln.Schema.get(name="Study metadata schema")
+artifact = ln.Artifact.from_anndata(
+    adata, schema=schema, key="examples/mini_immuno_uns.h5ad"
+)
+artifact.describe()

{lamindb-1.11a1 → lamindb-1.11.1}/docs/scripts/curate_dataframe_attrs.py

@@ -1,20 +1,13 @@
 import lamindb as ln
 
-df = ln.core.datasets.mini_immuno.get_dataset1(otype="DataFrame")
-df.attrs = {"temperature": 21.6, "experiment_id": "EXP001"}
+from .define_schema_df_metadata import study_metadata_schema
 
-study_metadata_schema = ln.Schema(
-    features=[
-        ln.Feature(name="temperature", dtype=float).save(),
-        ln.Feature(name="experiment_id", dtype=str).save(),
-    ],
-).save()
+df = ln.examples.datasets.mini_immuno.get_dataset1(otype="DataFrame")
 schema = ln.Schema(
     features=[ln.Feature(name="perturbation", dtype="str").save()],
     slots={"attrs": study_metadata_schema},
     otype="DataFrame",
 ).save()
-
 curator = ln.curators.DataFrameCurator(df, schema=schema)
 curator.validate()
 artifact = curator.save_artifact(key="examples/df_with_attrs.parquet")

{lamindb-1.11a1 → lamindb-1.11.1}/docs/scripts/curate_mudata.py

@@ -1,6 +1,17 @@
 import lamindb as ln
 import bionty as bt
 
+from docs.scripts.define_schema_df_metadata import study_metadata_schema
+
+# define labels
+perturbation = ln.ULabel(name="Perturbation", is_type=True).save()
+ln.ULabel(name="Perturbed", type=perturbation).save()
+ln.ULabel(name="NT", type=perturbation).save()
+
+replicate = ln.ULabel(name="Replicate", is_type=True).save()
+ln.ULabel(name="rep1", type=replicate).save()
+ln.ULabel(name="rep2", type=replicate).save()
+ln.ULabel(name="rep3", type=replicate).save()
 
 # define the global obs schema
 obs_schema = ln.Schema(
@@ -25,7 +36,7 @@ obs_schema_rna = ln.Schema(
 obs_schema_hto = ln.Schema(
     name="mudata_papalexi21_subset_hto_obs_schema",
     features=[
-        ln.Feature(name="nCount_HTO", dtype=int).save(),
+        ln.Feature(name="nCount_HTO", dtype=float).save(),
         ln.Feature(name="nFeature_HTO", dtype=int).save(),
         ln.Feature(name="technique", dtype=bt.ExperimentalFactor).save(),
     ],
@@ -47,11 +58,12 @@ mudata_schema = ln.Schema(
         "rna:obs": obs_schema_rna,
         "hto:obs": obs_schema_hto,
         "rna:var": var_schema_rna,
+        "uns:study_metadata": study_metadata_schema,
     },
 ).save()
 
 # curate a MuData
-mdata = ln.core.datasets.mudata_papalexi21_subset()
+mdata = ln.core.datasets.mudata_papalexi21_subset(with_uns=True)
 bt.settings.organism = "human"  # set the organism to map gene symbols
 curator = ln.curators.MuDataCurator(mdata, mudata_schema)
 artifact = curator.save_artifact(key="examples/mudata_papalexi21_subset.h5mu")

lamindb-1.11.1/docs/scripts/define_schema_anndata_uns.py

@@ -0,0 +1,10 @@
+import lamindb as ln
+
+from define_schema_df_metadata import study_metadata_schema
+
+anndata_uns_schema = ln.Schema(
+    otype="AnnData",
+    slots={
+        "uns:study_metadata": study_metadata_schema,
+    },
+).save()

lamindb-1.11.1/docs/scripts/define_schema_df_metadata.py

@@ -0,0 +1,9 @@
+import lamindb as ln
+
+study_metadata_schema = ln.Schema(
+    name="Study metadata schema",
+    features=[
+        ln.Feature(name="temperature", dtype=float).save(),
+        ln.Feature(name="experiment", dtype=str).save(),
+    ],
+).save()

{lamindb-1.11a1 → lamindb-1.11.1}/docs/track.ipynb

@@ -19,7 +19,7 @@
    },
    "outputs": [],
    "source": [
-    "# pip install 'lamindb[jupyter]'\n",
+    "# pip install lamindb\n",
     "!lamin init --storage ./test-track"
    ]
   },
@@ -883,7 +883,7 @@
  ],
  "metadata": {
   "kernelspec": {
-   "display_name": "lamindb",
+   "display_name": "py312",
    "language": "python",
    "name": "python3"
   },

{lamindb-1.11a1 → lamindb-1.11.1}/docs/transfer.ipynb

@@ -24,7 +24,7 @@
    },
    "outputs": [],
    "source": [
-    "# pip install 'lamindb[jupyter,bionty]'\n",
+    "# pip install lamindb\n",
     "!lamin init --storage ./test-transfer --modules bionty"
    ]
   },

{lamindb-1.11a1 → lamindb-1.11.1}/lamindb/__init__.py

@@ -114,7 +114,7 @@ Backwards compatibility.
 
 # ruff: noqa: I001
 # denote a release candidate for 0.1.0 with 0.1rc1, 0.1a1, 0.1b1, etc.
-__version__ = "1.11a1"
+__version__ = "1.11.1"
 
 import warnings as _warnings
 

{lamindb-1.11a1 → lamindb-1.11.1}/lamindb/_finish.py

@@ -173,7 +173,7 @@ def notebook_to_script(  # type: ignore
     if script_path is None:
         return py_content
     else:
-        script_path.write_text(py_content)
+        script_path.write_text(py_content, encoding="utf-8")
 
 
 def clean_r_notebook_html(file_path: Path) -> tuple[str | None, Path]:
@@ -202,7 +202,7 @@ def clean_r_notebook_html(file_path: Path) -> tuple[str | None, Path]:
             )  # RStudio might insert a newline
             cleaned_content = cleaned_content.replace(orig_error_message, "")
     cleaned_path = file_path.parent / (f"{file_path.stem}.cleaned{file_path.suffix}")
-    cleaned_path.write_text(cleaned_content)
+    cleaned_path.write_text(cleaned_content, encoding="utf-8")
     return title_text, cleaned_path
 
 
@@ -474,7 +474,7 @@ def save_context_core(
         # this can happen in interactively executed notebooks with a pro-active version bump in case it turns out that the user didn't make a change to the notebook
         run.transform = transform
         run.save()
-        ln.Transform.get(transform_id_prior_to_save).delete()
+        ln.Transform.get(transform_id_prior_to_save).delete(permanent=True)
 
     # finalize
     if finished_at and not from_cli and run is not None:

{lamindb-1.11a1 → lamindb-1.11.1}/lamindb/core/_context.py

@@ -600,9 +600,11 @@ class Context:
         if pypackages is None:
             pypackages = True
         description = None
+        if path.suffix == ".ipynb" and path.stem.startswith("Untitled"):
+            raise RuntimeError(
+                "Your notebook is untitled, please rename it before tracking"
+            )
         path_str = path.as_posix()
-        if path_str.endswith("Untitled.ipynb"):
-            raise RuntimeError("Please rename your notebook before tracking it")
         if path_str.startswith("/fileId="):
             logger.warning("tracking on Google Colab is experimental")
             path_str = get_notebook_key_colab()

{lamindb-1.11a1 → lamindb-1.11.1}/lamindb/curators/core.py

@@ -411,7 +411,7 @@ class ComponentCurator(Curator):
     """Curator for `DataFrame`.
 
     Provides all key functionality to validate Pandas DataFrames.
-    This class is not user facing unlike :class:`~lamindb.DataFrameCurator` which extends this
+    This class is not user facing unlike :class:`~lamindb.curators.DataFrameCurator` which extends this
     class with functionality to validate the `attrs` slot.
 
     Args:
@@ -671,7 +671,7 @@ class DataFrameCurator(SlotsCurator):
 
     Examples:
 
-        For a simple example using a flexible schema, see :meth:`~lamindb.Artifact.from_df`.
+        For a simple example using a flexible schema, see :meth:`~lamindb.Artifact.from_dataframe`.
 
         Here is an example that enforces a minimal set of columns in the dataframe.
 
@@ -688,7 +688,7 @@ class DataFrameCurator(SlotsCurator):
         .. literalinclude:: scripts/define_mini_immuno_features_labels.py
             :language: python
 
-         It is also possible to curate the `attrs` slot.
+        It is also possible to curate the `attrs` slot.
 
         .. literalinclude:: scripts/curate_dataframe_attrs.py
             :language: python
@@ -885,12 +885,20 @@ class AnnDataCurator(SlotsCurator):
         dataset: The AnnData-like object to validate & annotate.
         schema: A :class:`~lamindb.Schema` object that defines the validation constraints.
 
-    Example:
+    Examples:
+
+        Curate Ensembl gene IDs and valid features in obs:
 
         .. literalinclude:: scripts/curate_anndata_flexible.py
             :language: python
             :caption: curate_anndata_flexible.py
 
+        Curate `uns` dictionary:
+
+        .. literalinclude:: scripts/curate_anndata_uns.py
+            :language: python
+            :caption: curate_anndata_uns.py
+
     See Also:
         :meth:`~lamindb.Artifact.from_anndata`.
     """
@@ -903,7 +911,7 @@ class AnnDataCurator(SlotsCurator):
         super().__init__(dataset=dataset, schema=schema)
         if not data_is_scversedatastructure(self._dataset, "AnnData"):
             raise InvalidArgument("dataset must be AnnData-like.")
-        if schema.otype != "AnnData":
+        if schema.otype and schema.otype != "AnnData":
             raise InvalidArgument("Schema otype must be 'AnnData'.")
 
         for slot, slot_schema in schema.slots.items():

{lamindb-1.11a1 → lamindb-1.11.1}/lamindb/errors.py

@@ -60,6 +60,12 @@ class DoesNotExist(Exception):
     pass
 
 
+class MultipleResultsFound(Exception):
+    """Multiple records found."""
+
+    pass
+
+
 class InconsistentKey(Exception):
     """Inconsistent transform or artifact `key`."""
 

{lamindb-1.11a1 → lamindb-1.11.1}/lamindb/examples/cellxgene/_cellxgene.py

@@ -28,7 +28,7 @@ FieldType = Literal["ontology_id", "name"]
 
 @deprecated(new_name="save_cellxgene_defaults")
 def save_cxg_defaults() -> None:
-    return save_cxg_defaults()
+    return save_cellxgene_defaults()
 
 
 def save_cellxgene_defaults() -> None: