anndata_dask_array.ipynb: copy tweaks / improvements

Dockerfile

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+# Docker-based environment for regenerating notebooks deterministically; see `regenerate.sh`
+FROM python:3.11.8
+RUN apt-get update -y \
+ && apt-get install -y graphviz \
+ && pip install anndata dask graphviz jupyter juq.py papermill 'zarr<3'
+WORKDIR src
+ENTRYPOINT [ "juq", "papermill", "run", "-iI" ]

regenerate.sh

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+#!/usr/bin/env bash
+# Deterministically regenerate notebooks in this directory:
+# ```bash
+# ./regenerate.sh anndata_dask_array  # Regenerate a single notebook
+# ./regenerate.sh                     # Regenerate all notebooks
+# ```
+
+set -eo pipefail
+
+cd "$(dirname "${BASH_SOURCE[0]}")"
+
+name=anndata-notebooks
+docker build -t $name .
+
+if [ $# -eq 0 ]; then
+    set -- *.ipynb
+fi
+
+for nb in "$@"; do
+    nb="${nb%.ipynb}.ipynb"
+    echo "Executing nb: $nb" >&2
+    docker run -i --rm "--name=$name" -v "$PWD:/src" "$name" "$nb"
+done