lamindb 0.45a1__tar.gz → 0.46a1__tar.gz

{lamindb-0.45a1 → lamindb-0.46a1}/.github/workflows/build.yml

@@ -21,7 +21,7 @@ jobs:
           - "biology"
           - "faq"
           - "storage"
-    timeout-minutes: 25
+    timeout-minutes: 10
 
     steps:
       - uses: actions/checkout@v3

{lamindb-0.45a1 → lamindb-0.46a1}/.gitignore

@@ -35,6 +35,7 @@ docs/faq/tostore/
 docs/faq/mydata_postgres/
 docs/guide/myobjects/
 docs/faq/test-run-inputs/
+docs/intro/paradisi05_laminopathic_nuclei.jpg
 
 # General
 .DS_Store

{lamindb-0.45a1 → lamindb-0.46a1}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.1
 Name: lamindb
-Version: 0.45a1
+Version: 0.46a1
 Summary: LaminDB: Manage R&D data & analyses.
 Author-email: Lamin Labs <laminlabs@gmail.com>
 Requires-Python: >=3.8
@@ -8,9 +8,9 @@ Description-Content-Type: text/markdown
 Classifier: Programming Language :: Python :: 3.8
 Classifier: Programming Language :: Python :: 3.9
 Classifier: Programming Language :: Python :: 3.10
-Requires-Dist: lnschema_core==0.36.1
-Requires-Dist: lamindb_setup==0.47.11
-Requires-Dist: lamin_logger==0.7.1
+Requires-Dist: lnschema_core==0.38.0
+Requires-Dist: lamindb_setup==0.48.1
+Requires-Dist: lamin_logger==0.7.4
 Requires-Dist: erdiagram>=0.1.2
 Requires-Dist: rapidfuzz
 Requires-Dist: pydantic[dotenv]
@@ -24,7 +24,7 @@ Requires-Dist: pandas
 Requires-Dist: botocore==1.29.76 ; extra == "aws"
 Requires-Dist: boto3==1.26.76 ; extra == "aws"
 Requires-Dist: fsspec[s3]==2023.5.0 ; extra == "aws"
-Requires-Dist: lnschema_bionty==0.24.0 ; extra == "bionty"
+Requires-Dist: lnschema_bionty==0.25.5 ; extra == "bionty"
 Requires-Dist: readfcs>=1.1.3 ; extra == "fcs"
 Requires-Dist: fsspec[gs]==2023.5.0 ; extra == "gcp"
 Requires-Dist: nbproject>=0.9.0 ; extra == "jupyter"
@@ -57,7 +57,9 @@ Provides-Extra: zarr
 
 # LaminDB
 
-Open-source data lake to manage your existing data in your existing infrastructure.
+Open-source data lake, warehouse & feature store for biology.
+
+Manage your existing data & analyses in your existing infrastructure.
 
 ```{warning}
 
@@ -69,21 +71,22 @@ Update 2023-06-14:
 - The last version before the migration is 0.41.2.
 ```
 
-## Features
+## What?
 
-Free:
+LaminDB is a free & open-source Python library allowing you to:
 
-- Track [data lineage](https://lamin.ai/docs/guide/data-lineage) across notebooks, pipelines & apps.
-- Manage [biological registries, ontologies & features](https://lamin.ai/docs/biology/registries).
-- [Query, search & look up anything](https://lamin.ai/docs/guide/select), [manage & migrate custom schemas](https://lamin.ai/docs/setup/migrate).
-- [Persist, load](https://lamin.ai/docs/guide/files-records#in-memory-objects) & [stream data objects](https://lamin.ai/docs/guide/stream) with a single line of code.
-- [Idempotent](https://lamin.ai/docs/faq/idempotency) and [ACID](https://lamin.ai/docs/faq/acid) operations.
-- Use a mesh of LaminDB instances and [share them in a hub](https://lamin.ai/laminlabs) akin to GitHub.
+- Manage files & datasets while tracking [provenance](https://lamin.ai/docs/guide/data-lineage) across pipelines, notebooks & apps.
+- Manage biological [registries](https://lamin.ai/docs/biology/registries), [ontologies](https://lamin.ai/docs/bionty/) & features.
+- Rely on integrity & quality through largely automated data validation and [idempotent](https://lamin.ai/docs/faq/idempotency) & [ACID](https://lamin.ai/docs/faq/acid) operations.
+- Use a simple API for common tasks like:
+  - [Queries, searches & look ups](https://lamin.ai/docs/guide/select).
+  - Saving, loading & [streaming](https://lamin.ai/docs/guide/stream) of data objects.
+- Collaborate across a mesh of LaminDB instances ([share them in a hub](https://lamin.ai/laminlabs) akin to GitHub).
 
-Enterprise:
+You can combine LaminDB with LaminApp & consulting services on an enterprise plan:
 
-- Explore, share data & submit samples with LaminApp (deployable in your infrastructure).
-- Receive support, code templates & services for a BioTech data & analytics platform.
+- LaminApp: Explore & collaborate on data in a UI (deployable in your infrastructure).
+- Services: Support & code templates for a BioTech data & analytics platform.
 
 ## Usage overview
 

{lamindb-0.45a1 → lamindb-0.46a1}/README.md

@@ -5,7 +5,9 @@
 
 # LaminDB
 
-Open-source data lake to manage your existing data in your existing infrastructure.
+Open-source data lake, warehouse & feature store for biology.
+
+Manage your existing data & analyses in your existing infrastructure.
 
 ```{warning}
 
@@ -17,21 +19,22 @@ Update 2023-06-14:
 - The last version before the migration is 0.41.2.
 ```
 
-## Features
+## What?
 
-Free:
+LaminDB is a free & open-source Python library allowing you to:
 
-- Track [data lineage](https://lamin.ai/docs/guide/data-lineage) across notebooks, pipelines & apps.
-- Manage [biological registries, ontologies & features](https://lamin.ai/docs/biology/registries).
-- [Query, search & look up anything](https://lamin.ai/docs/guide/select), [manage & migrate custom schemas](https://lamin.ai/docs/setup/migrate).
-- [Persist, load](https://lamin.ai/docs/guide/files-records#in-memory-objects) & [stream data objects](https://lamin.ai/docs/guide/stream) with a single line of code.
-- [Idempotent](https://lamin.ai/docs/faq/idempotency) and [ACID](https://lamin.ai/docs/faq/acid) operations.
-- Use a mesh of LaminDB instances and [share them in a hub](https://lamin.ai/laminlabs) akin to GitHub.
+- Manage files & datasets while tracking [provenance](https://lamin.ai/docs/guide/data-lineage) across pipelines, notebooks & apps.
+- Manage biological [registries](https://lamin.ai/docs/biology/registries), [ontologies](https://lamin.ai/docs/bionty/) & features.
+- Rely on integrity & quality through largely automated data validation and [idempotent](https://lamin.ai/docs/faq/idempotency) & [ACID](https://lamin.ai/docs/faq/acid) operations.
+- Use a simple API for common tasks like:
+  - [Queries, searches & look ups](https://lamin.ai/docs/guide/select).
+  - Saving, loading & [streaming](https://lamin.ai/docs/guide/stream) of data objects.
+- Collaborate across a mesh of LaminDB instances ([share them in a hub](https://lamin.ai/laminlabs) akin to GitHub).
 
-Enterprise:
+You can combine LaminDB with LaminApp & consulting services on an enterprise plan:
 
-- Explore, share data & submit samples with LaminApp (deployable in your infrastructure).
-- Receive support, code templates & services for a BioTech data & analytics platform.
+- LaminApp: Explore & collaborate on data in a UI (deployable in your infrastructure).
+- Services: Support & code templates for a BioTech data & analytics platform.
 
 ## Usage overview
 

{lamindb-0.45a1 → lamindb-0.46a1}/docs/biology/01-registries.ipynb

@@ -185,7 +185,24 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "Save it to the DB to seed an in-house ontology:"
+    "Note that this ontology has `parents`, and therefore the parent records will also be added to the DB upon save:"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "gd_tcell.parents"
+   ]
+  },
+  {
+   "attachments": {},
+   "cell_type": "markdown",
+   "metadata": {},
+   "source": [
+    "Save the record to the DB to seed an in-house ontology:"
    ]
   },
   {
@@ -211,7 +228,25 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "lb.CellType.select(name=celltype_record.name).one()"
+    "gd_tcell_record = lb.CellType.select(name=celltype_record.name).one()\n",
+    "gd_tcell_record"
+   ]
+  },
+  {
+   "attachments": {},
+   "cell_type": "markdown",
+   "metadata": {},
+   "source": [
+    "Access its direct parents:"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "metadata": {},
+   "outputs": [],
+   "source": [
+    "gd_tcell_record.parents.all()"
    ]
   },
   {
@@ -219,7 +254,33 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "You can now work with a lookup object with much less terms: `lb.CellType.lookup()`"
+    "Query for all the parents with a specified distance:"
+   ]
+  },
+  {
+   "cell_type": "code",
+   "execution_count": null,
+   "metadata": {
+    "tags": [
+     "hide-cell"
+    ]
+   },
+   "outputs": [],
+   "source": [
+    "distance = 5\n",
+    "\n",
+    "results = []\n",
+    "for d in range(1, distance + 1):\n",
+    "    msg = f\"Depth = {d}\"\n",
+    "    if d == 1:\n",
+    "        condition = \"children__name\"\n",
+    "    else:\n",
+    "        condition = \"children__\" + condition\n",
+    "    records = lb.CellType.select(**{condition: gd_tcell_record.name}).list()\n",
+    "    msg += f\", {len(records)} records found:\"\n",
+    "    print(msg)\n",
+    "    print(records)\n",
+    "    results.append(records)"
    ]
   },
   {
@@ -235,8 +296,6 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "Often, you want to parse records from data and map it onto a reference. {func}`~lamindb.parse` takes any iterable and maps it on your in-house reference.\n",
-    "\n",
     "Consider a DataFrame-based example:"
    ]
   },
@@ -396,7 +455,7 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "ln.save(cell_types);"
+    "ln.save(cell_types)"
    ]
   },
   {

{lamindb-0.45a1 → lamindb-0.46a1}/docs/biology/02-scrna.ipynb

@@ -5,7 +5,7 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "# Track features in scRNA-seq data"
+    "# Track features in scRNA-seq"
    ]
   },
   {
@@ -38,29 +38,7 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "Consider an scRNA-seq count matrix in form of an `AnnData` object in memory:"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {
-    "tags": [
-     "hide-cell"
-    ]
-   },
-   "outputs": [],
-   "source": [
-    "adata = ln.dev.datasets.anndata_mouse_sc_lymph_node()"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "adata"
+    "## Track"
    ]
   },
   {
@@ -68,7 +46,7 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "The feature identifiers of this dataset are stored in a `DataFrame`:"
+    "We're working with mouse data, so let's set a context:"
    ]
   },
   {
@@ -77,7 +55,7 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "adata.var.head()"
+    "lb.settings.species = \"mouse\""
    ]
   },
   {
@@ -85,51 +63,20 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "## Parse features and create a `featureset`"
-   ]
-  },
-  {
-   "attachments": {},
-   "cell_type": "markdown",
-   "metadata": {},
-   "source": [
-    "The features in this data object are genes and indexed by Ensembl gene ids."
-   ]
-  },
-  {
-   "attachments": {},
-   "cell_type": "markdown",
-   "metadata": {},
-   "source": [
-    "Let's parse the features from the data into the Gene Ensembl id:"
+    "Let's look at a scRNA-seq count matrix in form of an `AnnData` object:"
    ]
   },
   {
    "cell_type": "code",
    "execution_count": null,
-   "metadata": {},
+   "metadata": {
+    "tags": [
+     "hide-cell"
+    ]
+   },
    "outputs": [],
    "source": [
-    "# Don't forget to specify species here, default is \"human\"\n",
-    "featureset = ln.FeatureSet.from_values(\n",
-    "    adata.var.index, lb.Gene.ensembl_gene_id, species=\"mouse\"\n",
-    ")"
-   ]
-  },
-  {
-   "attachments": {},
-   "cell_type": "markdown",
-   "metadata": {},
-   "source": [
-    "(Under the hood, this leveraged `ln.parse` to create the records, followed by storing them as a `featureset`.)"
-   ]
-  },
-  {
-   "attachments": {},
-   "cell_type": "markdown",
-   "metadata": {},
-   "source": [
-    "Save the featureset to the databse:"
+    "adata = ln.dev.datasets.anndata_mouse_sc_lymph_node()"
    ]
   },
   {
@@ -138,15 +85,7 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "ln.save(featureset);"
-   ]
-  },
-  {
-   "attachments": {},
-   "cell_type": "markdown",
-   "metadata": {},
-   "source": [
-    "Here, all features were successfully (unambiguously) linked against their canonical reference in `bionty.Gene`."
+    "adata"
    ]
   },
   {
@@ -154,7 +93,7 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "This creates a feature set of type `gene` linked (indexed by its hash):"
+    "The feature identifiers of this matrix are stored in a `DataFrame`:"
    ]
   },
   {
@@ -163,7 +102,7 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "featureset"
+    "adata.var.head()"
    ]
   },
   {
@@ -171,7 +110,7 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "This feature set links records for 10k genes. Here are the first 3, all of which can be queried:"
+    "When we create a file object from an AnnData, we'll automatically link it's FeatureSet:"
    ]
   },
   {
@@ -180,23 +119,16 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "featureset.genes.values_list(\"symbol\", flat=True)[:5]"
-   ]
-  },
-  {
-   "attachments": {},
-   "cell_type": "markdown",
-   "metadata": {},
-   "source": [
-    "Hence, not just for Ensemble IDs, but also by gene symbol, NCBI ids, gene type, etc."
+    "file = ln.File(adata, var_ref=lb.Gene.ensembl_gene_id)"
    ]
   },
   {
-   "attachments": {},
-   "cell_type": "markdown",
+   "cell_type": "code",
+   "execution_count": null,
    "metadata": {},
+   "outputs": [],
    "source": [
-    "## Track data with features (genes)"
+    "file.save()"
    ]
   },
   {
@@ -204,7 +136,7 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "Now we can track data together with featureset by link them:"
+    "The file now has two feature sets linked:"
    ]
   },
   {
@@ -213,7 +145,10 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "file = ln.File(adata, name=\"Mouse Lymph Node scRNA-seq\")"
+    "feature_sets = file.feature_sets.all()\n",
+    "\n",
+    "for feature_set in feature_sets:\n",
+    "    print(feature_set)"
    ]
   },
   {
@@ -222,7 +157,7 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "ln.save(file);"
+    "ln.Feature.select(feature_sets__in=feature_sets).df().head()"
    ]
   },
   {
@@ -231,7 +166,7 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "file.featuresets.add(featureset)"
+    "lb.Gene.select(feature_sets__in=feature_sets).df().head(2)"
    ]
   },
   {
@@ -239,24 +174,18 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "The features can now be accessed via relationship to dobejct:"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "file.featuresets.values_list()"
-   ]
-  },
-  {
-   "attachments": {},
-   "cell_type": "markdown",
-   "metadata": {},
-   "source": [
-    "## Query data by features"
+    ":::{dropdown} Annotate an existing file\n",
+    "\n",
+    "You can annotate an existing file via:\n",
+    "\n",
+    "```\n",
+    "feature_set = ln.FeatureSet.from_values(adata.var.index, lb.Gene.ensembl_gene_id)\n",
+    "feature_set.save()\n",
+    "file.feature_sets.add(feature_set)\n",
+    "file.save()\n",
+    "```\n",
+    "\n",
+    ":::"
    ]
   },
   {
@@ -264,25 +193,7 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "A DB lookup object for autocompletion:"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "db_lookup = lb.Gene.lookup()"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "db_lookup.actg1"
+    "## Query by features"
    ]
   },
   {
@@ -290,7 +201,7 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "Let us query gene records by symbol:"
+    "Lookup one the genes in our Gene registry."
    ]
   },
   {
@@ -299,7 +210,7 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "ln.select(lb.Gene, symbol=\"Actg1\").df()"
+    "genes = lb.Gene.lookup()"
    ]
   },
   {
@@ -316,16 +227,7 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "ln.select(ln.FeatureSet).filter(genes=db_lookup.actg1).df()"
-   ]
-  },
-  {
-   "cell_type": "code",
-   "execution_count": null,
-   "metadata": {},
-   "outputs": [],
-   "source": [
-    "ln.select(ln.FeatureSet).filter(genes__symbol=\"Actg1\").df()"
+    "ln.FeatureSet.select(genes=genes.actg1).df()"
    ]
   },
   {
@@ -333,7 +235,7 @@
    "cell_type": "markdown",
    "metadata": {},
    "source": [
-    "Query files whose featuresets contain the gene:"
+    "Query files whose features contain the gene:"
    ]
   },
   {
@@ -342,7 +244,7 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "ln.select(ln.File).filter(featuresets__genes=db_lookup.actg1).df()"
+    "ln.File.select(feature_sets__genes=genes.actg1).df()"
    ]
   },
   {

{lamindb-0.45a1 → lamindb-0.46a1}/docs/biology/03-flow.ipynb

@@ -159,7 +159,7 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "file.featuresets.add(featureset)"
+    "file.feature_sets.add(featureset)"
    ]
   },
   {
@@ -194,7 +194,7 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "ln.File.select(featuresets__cell_markers=cell_markers.cd14).df()"
+    "ln.File.select(feature_sets__cell_markers=cell_markers.cd14).df()"
    ]
   },
   {
@@ -208,7 +208,7 @@
    "outputs": [],
    "source": [
     "# throw error if there is more or less\n",
-    "ln.File.select(featuresets__cell_markers=cell_markers.cd14).one()\n",
+    "ln.File.select(feature_sets__cell_markers=cell_markers.cd14).one()\n",
     "# clean up test instance\n",
     "!lamin delete test-flow\n",
     "!rm -r test-flow"

{lamindb-0.45a1 → lamindb-0.46a1}/docs/changelog.md

@@ -1,8 +1,35 @@
 # Changelog
 
-## 0.45a1 (2023-06-27)
+- 🎉 Stage 0.46 (refactor features, file description, setup behavior, species setting) [PR826](https://github.com/laminlabs/lamindb/pull/826) [@falexwolf](https://github.com/falexwolf)
+- 🐛 Fix species bug for no-species orms [PR827](https://github.com/laminlabs/lamindb/pull/827) [@sunnyosun](https://github.com/sunnyosun)
+- 🚸 More user-friendly errors if instance not setup [PR825](https://github.com/laminlabs/lamindb/pull/825) [@falexwolf](https://github.com/falexwolf)
+-  🚚 Rename `File.name` to `File.description` [PR824](https://github.com/laminlabs/lamindb/pull/824) [@falexwolf](https://github.com/falexwolf)
+- ♻️ Refactor `FeatureSet` [PR822](https://github.com/laminlabs/lamindb/pull/822) [@falexwolf](https://github.com/falexwolf)
+- 🐛 Fix passing parents to save [PR821](https://github.com/laminlabs/lamindb/pull/821) [@sunnyosun](https://github.com/sunnyosun)
+- 🎨 Allow passing parents=False to ln.save [PR820](https://github.com/laminlabs/lamindb/pull/820) [@sunnyosun](https://github.com/sunnyosun)
+- 🚸 Parse features for `AnnData` [PR818](https://github.com/laminlabs/lamindb/pull/818) [@falexwolf](https://github.com/falexwolf)
+- 🚑️ Handles categorical input for map_synonyms [PR819](https://github.com/laminlabs/lamindb/pull/819) [@sunnyosun](https://github.com/sunnyosun)
+- 🎉 Stage 0.46 (refactor, signatures, fixes) [PR814](https://github.com/laminlabs/lamindb/pull/814) [@falexwolf](https://github.com/falexwolf)
+- 🚑️ Allow bulk saving of parents [PR816](https://github.com/laminlabs/lamindb/pull/816) [@sunnyosun](https://github.com/sunnyosun)
+- 📝 Fix docs [PR817](https://github.com/laminlabs/lamindb/pull/817) [@falexwolf](https://github.com/falexwolf)
+- 🚚 Move `File` signatures [PR815](https://github.com/laminlabs/lamindb/pull/815) [@falexwolf](https://github.com/falexwolf)
+- ♻️ Put things where they should be and test `ORM` signatures [PR813](https://github.com/laminlabs/lamindb/pull/813) [@falexwolf](https://github.com/falexwolf)
+- 🎉 Stage release 0.46 (`Dataset`, `Feature`, hierarchical ORMs) [PR806](https://github.com/laminlabs/lamindb/pull/806) [@falexwolf](https://github.com/falexwolf)
+- ✨ Also enable `Dataset` from `AnnData` [PR812](https://github.com/laminlabs/lamindb/pull/812) [@falexwolf](https://github.com/falexwolf)
+- ✨ Added self-referential parents, renamed abbr and description [PR810](https://github.com/laminlabs/lamindb/pull/810) [@sunnyosun](https://github.com/sunnyosun)
+- ✨ Enable `Dataset` to be sharded [PR809](https://github.com/laminlabs/lamindb/pull/809) [@falexwolf](https://github.com/falexwolf)
+- 🚸 Store hash for remote files on S3 [PR808](https://github.com/laminlabs/lamindb/pull/808) [@falexwolf](https://github.com/falexwolf)
+- ✨ Add `Dataset` & `Feature` ORMs [PR805](https://github.com/laminlabs/lamindb/pull/805) [@falexwolf](https://github.com/falexwolf)
+- 🐛 Fix the variable bug in File.delete [PR811](https://github.com/laminlabs/lamindb/pull/811) [@Koncopd](https://github.com/Koncopd)
+
+## 0.45.0 (2023-06-27)
+
+### Features
 
 - ♻️ Replaced `ln.parse` with `ORM.from_values` [PR803](https://github.com/laminlabs/lamindb/pull/803) [@sunnyosun](https://github.com/sunnyosun)
+
+### Refactors
+
 - 🎨 Auto-manage `RunInput` ORM [PR802](https://github.com/laminlabs/lamindb/pull/802) [@falexwolf](https://github.com/falexwolf)
 - ✅ Add some unit tests for storage [PR801](https://github.com/laminlabs/lamindb/pull/801) [@Koncopd](https://github.com/Koncopd)
 

{lamindb-0.45a1 → lamindb-0.46a1}/docs/faq/acid.ipynb

@@ -241,7 +241,7 @@
    "metadata": {},
    "outputs": [],
    "source": [
-    "assert ln.File.select(name=\"conflicting-project\").one_or_none() is None"
+    "assert ln.File.select(description=\"conflicting-project\").one_or_none() is None"
    ]
   },
   {
@@ -271,7 +271,7 @@
    "source": [
     "filepath = ln.dev.datasets.file_jpg_paradisi05()\n",
     "file = ln.File(filepath, name=\"My image\")\n",
-    "files = [file, \"this is not a BaseORM\"]"
+    "files = [file, \"this is not an ORM\"]"
    ]
   },
   {