adjust to epic

Author: patricktnast

src/vivarium_testing_utils/automated_validation/calculations.py

@@ -4,22 +4,22 @@
 def process_raw_data(
     input_data_type: str, raw_data: pd.DataFrame, measure: str
 ) -> pd.DataFrame:
-    pass
+    raise NotImplementedError
 
 
 def compute_metric(
     input_data_type: str, intermediate_data: pd.DataFrame, measure: str
 ) -> pd.Series:
-    pass
+    raise NotImplementedError
 
 
 def ratio(numerator, denominator):
-    pass
+    raise NotImplementedError
 
 
 def aggregate(data: pd.DataFrame, groupby_cols: list[str]) -> pd.DataFrame:
-    pass
+    raise NotImplementedError
 
 
 def linear_combination(coefficients: list[float], data: pd.DataFrame) -> pd.Series:
-    pass
+    raise NotImplementedError

src/vivarium_testing_utils/automated_validation/comparison.py

@@ -20,10 +20,10 @@ def __init__(
         # you need to marginalize out the non-stratified columns as well
 
     def verify(self, stratifications: list[str]):
-        pass
+        raise NotImplementedError
 
     def summarize(self, stratifications: list[str]):
-        pass
+        raise NotImplementedError
 
     def heads(self, stratifications: list[str]):
-        pass
+        raise NotImplementedError

src/vivarium_testing_utils/automated_validation/data_loader.py

@@ -44,7 +44,7 @@ def sim_outputs(self) -> list[str]:
         return [str(f.stem) for f in self.sim_output_dir.glob("*.parquet")]
 
     def artifact_keys(self) -> list[str]:
-        pass
+        raise NotImplementedError
 
     def load_from_sim(self, dataset_key: str) -> pd.DataFrame:
         """Load the data from the simulation output directory and set the non-value columns as indices."""
@@ -55,10 +55,10 @@ def load_from_sim(self, dataset_key: str) -> pd.DataFrame:
         return sim_data
 
     def load_from_artifact(self, dataset_key: str) -> pd.DataFrame:
-        pass
+        raise NotImplementedError
 
     def load_from_gbd(self, dataset_key: str) -> pd.DataFrame:
-        pass
+        raise NotImplementedError
 
     def load_custom(self, dataset_key: str) -> pd.DataFrame:
-        pass
+        raise NotImplementedError

src/vivarium_testing_utils/automated_validation/interface.py

@@ -35,14 +35,14 @@ def plot_comparison(self, comparison_key: str, type: str, kwargs):
         return plot_utils.plot_comparison(self.comparisons[comparison_key], type, kwargs)
 
     def generate_comparisons(self):
-        pass
+        raise NotImplementedError
 
     def verify_all(self):
         for comparison in self.comparisons.values():
             comparison.verify()
 
     def plot_all(self):
-        pass
+        raise NotImplementedError
 
     def get_results(self, verbose: bool = False):
-        pass
+        raise NotImplementedError

src/vivarium_testing_utils/automated_validation/plot_utils.py

@@ -4,28 +4,28 @@
 
 
 def plot_comparison(comparison: Comparison, type: str, kwargs):
-    pass
+    raise NotImplementedError
 
 
 def plot_data(dataset: pd.DataFrame, type: str, kwargs):
-    pass
+    raise NotImplementedError
 
 
 def line_plot(comparison: Comparison, x_axis: str, stratifications: list[str]):
-    pass
+    raise NotImplementedError
 
 
 def bar_plot(comparison: Comparison, x_axis: str, stratifications: list[str]):
-    pass
+    raise NotImplementedError
 
 
 def box_plot(comparison: Comparison, cat: str, stratifications: list[str]):
-    pass
+    raise NotImplementedError
 
 
 def heatmap(comparison: Comparison, row: str, col: str):
-    pass
+    raise NotImplementedError
 
 
 def save_plot(fig, name, format):
-    pass
+    raise NotImplementedError