✨ Add script to add references to existing corpus

.gitignore

@@ -113,6 +113,7 @@ test-cellxgene/
 *.lamindb
 
 # Convenience
+run-tests
 test.ipynb
 
 # cxg

cellxgene_lamin/dev/__init__.py

@@ -0,0 +1,4 @@
+from cellxgene_lamin.dev._cxg_rest_api import (
+    get_collections_from_cxg,
+    get_datasets_from_cxg,
+)

cellxgene_lamin/dev/_cxg_rest_api.py

@@ -1,7 +1,9 @@
+from typing import Any
+
 import requests
 
 
-def get_datasets_from_cxg():
+def get_datasets_from_cxg() -> dict[str, Any]:
     api_url_base = "https://api.cellxgene.cziscience.com"
     datasets_path = "/curation/v1/datasets"
     datasets_url = f"{api_url_base}{datasets_path}"
@@ -12,7 +14,7 @@ def get_datasets_from_cxg():
     return res_content
 
 
-def get_collections_from_cxg():
+def get_collections_from_cxg() -> dict[str, Any]:
     api_url_base = "https://api.cellxgene.cziscience.com"
     collections_path = "/curation/v1/collections"
     collections_url = f"{api_url_base}{collections_path}"

docs/cellxgene.ipynb

@@ -61,7 +61,7 @@
    },
    "outputs": [],
    "source": [
-    "# !pip install 'lamindb[bionty,jupyter]'\n",
+    "# !pip install 'lamindb[bionty,ourprojects,jupyter]'\n",
     "!lamin load laminlabs/cellxgene"
    ]
   },

docs/notebooks.md

@@ -18,6 +18,7 @@ The following notebooks are versioned documents of creating the instance.
 :hidden:
 
 notebooks/cencus-release-2024-07-01-LTS
+notebooks/census-release-2024-07-01-References.ipynb
 notebooks/cencus-release-2023-12-15-LTS
 notebooks/census-release-2023-12-06
 notebooks/census-release-2023-11-13