fix(bash): fix run_notebooks.sh (used file from pydesrap_mms)

Author: amyheather

run_notebooks.sh

@@ -1,20 +1,28 @@
 #!/usr/bin/env bash
 
-# Loop through all notebooks in the specified directory
-for nb in notebooks/*.ipynb; do
+# Get the conda environment's jupyter path
+CONDA_JUPYTER=$(dirname "$(which python)")/jupyter
+
+run_notebook() {
+    local nb="$1"
     echo "🏃 Running notebook: $nb"
-    
-    # Execute and update the notebook in-place
-    # With some processing to remove metadata created by nbconvert
-    if python -m jupyter nbconvert --to notebook --inplace --execute \
+    if "${CONDA_JUPYTER}" nbconvert --to notebook --inplace --execute \
         --ClearMetadataPreprocessor.enabled=True \
         --ClearMetadataPreprocessor.clear_notebook_metadata=False \
         --ClearMetadataPreprocessor.preserve_cell_metadata_mask="kernelspec" \
-        "$nb"; then
+        "$nb"
+    then
         echo "✅ Successfully processed: $nb"
     else
         echo "❌ Error processing: $nb"
     fi
-    
     echo "-------------------------"
-done
+}
+
+if [[ -n "$1" ]]; then
+    run_notebook "$1"
+else
+    for nb in notebooks/*.ipynb; do
+        run_notebook "$nb"
+    done
+fi