Python 3.12 support

.github/workflows/run_notebooks.yml

@@ -26,11 +26,14 @@ jobs:
             - name: Set up Python
               uses: actions/setup-python@v5
               with:
-                  python-version: "3.11"
+                  python-version: "3.12"
 
             - name: Install UV
               run: pip install uv
 
+            - name: Install graphviz
+              run: pip install graphviz
+
             - name: Install ehrapy and additional dependencies
               run: uv pip install --system . cellrank nbconvert ipykernel
 

.github/workflows/test.yml

@@ -24,9 +24,9 @@ jobs:
                     - os: ubuntu-latest
                       python: "3.10"
                     - os: ubuntu-latest
-                      python: "3.11"
+                      python: "3.12"
                     - os: ubuntu-latest
-                      python: "3.11"
+                      python: "3.12"
                       pip-flags: "--pre"
 
         env:

ehrapy/plot/causal_inference/_dowhy.py

@@ -33,7 +33,12 @@ def causal_effect(estimate: dowhy.causal_estimator.CausalEstimate, precision: in
 
     treatment_name = estimate.estimator._target_estimand.treatment_variable[0]
     outcome_name = estimate.estimator._target_estimand.outcome_variable[0]
-    data = estimate._data
+
+    if dowhy.__version__ == "0.8":  # TODO: Remove this once dowhy supports Python 3.12
+        data = estimate.estimator._data
+    else:
+        data = estimate._data
+
     treatment = data[treatment_name].values
     outcome = data[outcome_name]